Extracts variants from a maf file — extract_variants_from_maf

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extract_variants_from_maf_file(maf_file, extra_fields = NULL)

Arguments

maf_file: Location of maf file
extra_fields: Optionally extract additional columns from the object. Default NULL.

Returns a data.table of variants from a maf

maf_file <- system.file("extdata", "public_TCGA.LUSC.maf",
package = "musicatk")
maf <- extract_variants_from_maf_file(maf_file = maf_file)