addLogo | Add motif logo to RcisTarget results table |
addMotifAnnotation | Add motif annotation |
addSignificantGenes | Add significant genes |
addSignificantGenes-method | Add significant genes |
aucScores | Class to store the AUC scores for RcisTarget. |
aucScores-class | Class to store the AUC scores for RcisTarget. |
calcAUC | Calculate AUC |
calcAUC-method | Calculate AUC |
cisTarget | cisTarget |
colnames-method | Class to store the motif databases for RcisTarget. |
convertToTargetRegions | convertToTargetRegions |
dbRegionsLoc | Genomic location for the database regions |
dbRegionsLoc_hg19_v9 | Genomic location for the database regions |
dbRegionsLoc_mm9_v9 | Genomic location for the database regions |
getAUC | Class to store the AUC scores for RcisTarget. |
getAUC-method | Class to store the AUC scores for RcisTarget. |
getColumnNames | Import the motif databases for RcisTarget. |
getDbRegionsLoc | Gets the region location for the given database IDs. |
getMaxRank | Class to store the motif databases for RcisTarget. |
getMaxRank-method | Class to store the motif databases for RcisTarget. |
getMotifAnnotation | Get motif annotation |
getNumColsInDB | Class to store the motif databases for RcisTarget. |
getNumColsInDB-method | Class to store the motif databases for RcisTarget. |
getRanking | Class to store the motif databases for RcisTarget. |
getRanking-method | Class to store the motif databases for RcisTarget. |
getRowNames | Import the motif databases for RcisTarget. |
getSignificantGenes | Add significant genes |
getSignificantGenes-method | Add significant genes |
importAnnotations | Imports the annotations of motifs to transcription factors |
importRankings | Import the motif databases for RcisTarget. |
motifAnnotations | Annotations of Motifs to TFs |
motifAnnotations_dmel | Annotations of Motifs to TFs |
motifAnnotations_dmel_v8 | Annotations of Motifs to TFs |
motifAnnotations_dmel_v9 | Annotations of Motifs to TFs |
motifAnnotations_hgnc | Annotations of Motifs to TFs |
motifAnnotations_hgnc_v8 | Annotations of Motifs to TFs |
motifAnnotations_hgnc_v9 | Annotations of Motifs to TFs |
motifAnnotations_mgi | Annotations of Motifs to TFs |
motifAnnotations_mgi_v8 | Annotations of Motifs to TFs |
motifAnnotations_mgi_v9 | Annotations of Motifs to TFs |
ncol-method | Class to store the motif databases for RcisTarget. |
nrow-method | Class to store the motif databases for RcisTarget. |
rankingRcisTarget | Class to store the motif databases for RcisTarget. |
rankingRcisTarget-class | Class to store the motif databases for RcisTarget. |
reRank | Re-rank RcisTarget ranking |
rownames-method | Class to store the motif databases for RcisTarget. |
show-method | Class to store the AUC scores for RcisTarget. |
show-method | Class to store the motif databases for RcisTarget. |
showLogo | Show RcisTarget as HTML |