Maf-class {MesKit}R Documentation

Maf class

Description

Maf class.

Slots

data

data.table of MAF file containing somatic mutations.

sample.info

data.frame of sample information per patient.

nonSyn.vc

list of variant classifications which are considered as non-silent. Default NULL, use Variant Classifications with "Frame_Shift_Del", "Frame_Shift_Ins", "Splice_Site", "Translation_Start_Site", "Nonsense_Mutation", "Nonstop_Mutation", "In_Frame_Del", "In_Frame_Ins", "Missense_Mutation"

ref.build

human reference genome version. Default 'hg19'. Optional: 'hg18' or 'hg38'.


[Package MesKit version 1.4.0 Index]