makeMutypeMatFromVcf: makeMutypeMatFromVcf

In FunGeST/Palimpsest: Package

makeMutypeMatFromVcf

Description

Function to create a matrix in mutation type x sample format with either counts or proportions

Usage

makeMutypeMatFromVcf(
  vcf,
  sample.col = "Sample",
  mutcat.col = "SBS_cat3",
  mutypes = c("CA", "CG", "CT", "TA", "TC", "TG"),
  proportion = TRUE
)

Arguments

vcf	vcf data frame containing the mutations/SVs
sample.col	sample.col
mutcat.col	mutcat.col
mutypes	mutypes
proportion	proportion

FunGeST/Palimpsest documentation built on June 2, 2024, 4:21 a.m.