mutFilterType: mutFilterType
In likelet/CaMutQC: An R Package for Comprehensive Filtration and Selection of Cancer Somatic Mutations
View source: R/mutFilterType.R
mutFilterType R Documentation
mutFilterType
Description
Filter variants based on variant types
Usage
mutFilterType(maf, keepType = "exonic")
Arguments
maf
An MAF data frame, generated by vcfToMAF function.
keepType
A group of variant classifications will be kept,
including 'exonic', 'nonsynonymous' and 'all'. Default: 'exonic'.
Value
An MAF data frame where some variants
has T tag in CaTag column for variant type filtration
Examples
maf <- vcfToMAF(system.file("extdata",
"WES_EA_T_1_mutect2.vep.vcf", package="CaMutQC"))
mafF <- mutFilterType(maf)
likelet/CaMutQC documentation built on Aug. 17, 2024, 4 a.m.
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View source: R/mutFilterType.R
| mutFilterType | R Documentation |
mutFilterType
Description
Filter variants based on variant types
Usage
mutFilterType(maf, keepType = "exonic")
Arguments
maf |
An MAF data frame, generated by |
keepType |
A group of variant classifications will be kept, including 'exonic', 'nonsynonymous' and 'all'. Default: 'exonic'. |
Value
An MAF data frame where some variants has T tag in CaTag column for variant type filtration
Examples
maf <- vcfToMAF(system.file("extdata",
"WES_EA_T_1_mutect2.vep.vcf", package="CaMutQC"))
mafF <- mutFilterType(maf)
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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