parseMOTIFBR: Parse MOTIFBR annotations from FunSeq2

In mil2041/CNCDriver: CNCDriver

Description

Parse MOTIFBR annotations from FunSeq2

Usage

parseMOTIFBR(dat, useCores = 1)

Arguments

dat	reducedFunseqOutput data frame
useCores	default is one

Value

motifBreakParsed data frame

Examples

# ETS_known17[chr19:49990691-49990691#49990686#49990704#-#14#-0.998921]
# motifmodel # mutation position # motif start # motif end # motif direction # mutation position on the motif model # delta score 
#date<-getRunDates(latest=TRUE)
cancerType<-"KIRC"
selectedSampleId<-NA
#worDir<-getwd()
mutSig2CVthreshold<-0.1
rareMutationUpperLimit<-0.3
rareMutationLowerLimit<-0.1
rareMutationFreq<-0.02

#runNetBox2(dataDir,cancerType,
#           mutationList,ampGeneList,delGeneList,epiSilencedList,
#           mutationFreq,ampGeneFreq,delGeneFreq,epiSilencedFreq,
#           pathwayCommonsDb,directed,
#           linkerPValThreshold,communityDetectionMethod,
#           keepIsolatedNodes,verbose=TRUE)

mil2041/CNCDriver documentation built on Dec. 13, 2020, 3:41 a.m.