mutFilterType: mutFilterType

View source: R/mutFilterType.R

mutFilterTypeR 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.