extract_variants_from_maf: Extract variants from a maf object

View source: R/load_data.R

extract_variants_from_mafR Documentation

Extract variants from a maf object

Description

Add description

Usage

extract_variants_from_maf(maf, extra_fields = NULL)

Arguments

maf

MAF object loaded by read.maf() from the 'maftools' package

extra_fields

Optionally extract additional columns from the maf object. Default NULL.

Value

Returns a data.table of variants from a maf which can be used to create a musica object.

Examples

maf_file <- system.file("extdata", "public_TCGA.LUSC.maf",
package = "musicatk")
library(maftools)
maf <- read.maf(maf_file)
variants <- extract_variants_from_maf(maf = maf)

campbio/musicatk documentation built on July 14, 2024, 8:28 a.m.