parsePosVariantByTriMutContextWithAnnotationCDS: Parse Pos Variant By TriMutContext With Annotation for...
In mil2041/CNCDriver: CNCDriver
Description
Usage
Arguments
Value
Examples
View source: R/utils-parsePosVariantByTriMutcontextWithAnnotationCDS.R
Description
Parse Pos Variant By TriMutContext With Annotation for protein coding region
Usage
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parsePosVariantByTriMutContextWithAnnotationCDS(
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
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#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.
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Description Usage Arguments Value Examples
View source: R/utils-parsePosVariantByTriMutcontextWithAnnotationCDS.R
Description
Parse Pos Variant By TriMutContext With Annotation for protein coding region
Usage
1 2 3 4 5 | parsePosVariantByTriMutContextWithAnnotationCDS(
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
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 | #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)
|
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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