Function that takes a MAF file generated with vcf2maf and filters out variants that are presumably germline (tumor-only run) — filter_maf_file • PCGR

Function that takes a MAF file generated with vcf2maf and filters out variants that are presumably germline (tumor-only run)

Usage

filter_maf_file(callset, settings)

Arguments

callset: Callset with pre-processed somatic SNV/InDel variants
settings: PCGR run/configuration settings