Single-Cell Analysis of Host-Microbiome Interactions
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Documentation for package ‘rsahmi’ version 0.0.2
Help Pages
| blsd | Barcode level signal denoising |
| extractor | Extract reads and output from Kraken |
| extract_kraken_output | Extract reads and output from Kraken |
| extract_kraken_reads | Extract reads and output from Kraken |
| extract_taxids | Extract reads and output from Kraken |
| parse_kraken_report | Parse kraken report file |
| prep_dataset | Prepare kraken report, k-mer statistics, UMI data |
| read_dataset | Prepare kraken report, k-mer statistics, UMI data |
| remove_contaminants | Identifying contaminants and false positives taxa (cell line quantile test) |
| slsd | Sample level signal denoising |
| taxa_counts | Quantitation of microbes |