Man pages for mil2041/CNCDriver
CNCDriver

addReplicationTimingSignalAdd replication timing signal value
addTriNucleotideDistributionAdd trinucleotide distribution annotations
calculatePvalueWithMutCategoryDistributionMatched7calculate Pvalue With Mut CategoryDistribution Matched
extractElementMutationsExtract overlapping mutations from element annotation bed...
get3utrPvalueRun CNCDriver 3'UTR p-value calculation
get3utrPvalueWithPreFilterRun CNCDriver 3'UTR p-value calculation with mutation...
get5utrPvalueRun CNCDriver 5'UTR p-value calculation
get5utrPvalueWithPreFilterRun CNCDriver 5'UTR p-value calculation with mutation...
getCDSPvalueRun CNCDriver coding region (CDS) p-value calculation
getCDSPvalueWithPreFilterRun CNCDriver coding region (CDS) p-value calculation with...
getCDSPvalueWithPreFilter2Run CNCDriver coding region (CDS) p-value calculation with...
getEnhancerElementPvalueRun CNCDriver enhancer element p-value calculation
getEnhancerElementPvalueWithPreFilter2Run CNCDriver enhancer element p-value calculation
getEnhancerUnitPvalueRun CNCDriver enhancer unit p-value calculation
getEnhancerUnitPvalueWithPreFilterRun CNCDriver enhancer unit p-value calculation
getEnhancerUnitPvalueWithPreFilter2Run CNCDriver enhancer unit p-value calculation
getLincRNAPvalueRun CNCDriver lincRNA p-value calculation
getLincRNAPvalueWithPreFilterRun CNCDriver lincRNA p-value calculation
getLincRNAPvalueWithPreFilter2Run CNCDriver lincRNA p-value calculation
getOpenChromatinElementPvalueRun CNCDriver open chromatin element p-value calculation
getOpenChromatinElementPvalueWithPreFilter2Run CNCDriver open chromatin element p-value calculation
getPromoterPvalueRun CNCDriver promoter p-value calculation
getPromoterPvalueWithPreFilterRun CNCDriver promoter p-value calculation with mutation...
getPromoterPvalueWithPreFilter2Run CNCDriver promoter p-value calculation with mutation...
makeElementReplicationTimingMake replication timing signal value for each regulatory...
makeQQplotMake QQ-plot
mergeVariantPositionmergeVariantPosition
mergeVariantPositionClusterEnhancerUnitV2mergeVariantPositionClusterEnhancerUnitV2
mergeVariantPositionClusterV2mergeVariantPositionClusterV2
mergeVariantPositionElementClusterV2mergeVariantPositionElementClusterV2
parseMOTIFBRParse MOTIFBR annotations from FunSeq2
parseMOTIFGParse MOTIFBR annotations from FunSeq2
parseNCENCParse NCENC annotations from FunSeq2
parsePosVariantByTriMutContextWithAnnotation5Parse Pos Variant By TriMutContext With Annotation
parsePosVariantByTriMutContextWithAnnotationCDSParse Pos Variant By TriMutContext With Annotation for...
reducedFunseqOutputCDSreduced funseq2 CDS output for LGG
reducedFunseqOutputNCDSreduced funseq2 NCDS output for LGG
mil2041/CNCDriver documentation built on Oct. 15, 2019, 3:34 p.m.