generateVariantTable | R Documentation |
Make variant table from maf file
generateVariantTable(maf, use_syn = FALSE, extra_cols = c())
maf |
The MAF object |
use_syn |
Whether or not to include synonymous variants (default is FALSE, i.e. returns non-synonymous mutations only) |
extra_cols |
Vector of column names to include from the MAF file. If it's a named vector, the names will be used in the output table. |
A data frame containing the variant information
Mayank Tandon, Ashish Jain
library(MAFDash) library(maftools) maf <- system.file("extdata", "test.mutect2.maf.gz", package = "MAFDash") variantTable<-generateVariantTable(read.maf(maf))
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