parsePosVariantByTriMutContextWithAnnotation5: Parse Pos Variant By TriMutContext With Annotation

In mil2041/CNCDriver: CNCDriver

Description

Parse Pos Variant By TriMutContext With Annotation

Usage

parsePosVariantByTriMutContextWithAnnotation5(
  geneDFunique,
  mutationDistMatrix,
  useCores = 1
)

Arguments

geneDFunique	geneDFunique data frame
mutationDistMatrix	mutationDistMatrix data frame
useCores	default is one, number of cput to use

Value

variantTriMutCategoryParsed data frame

Examples

#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.