read_MAF: Create mutational matrix from MAF file

In redsnic/CIMICE: CIMICE-R: (Markov) Chain Method to Inferr Cancer Evolution

Create mutational matrix from MAF file

Description

Read a MAF (Mutation Annotation Format) file and create a Mutational Matrix combining gene and sample IDs.

Usage

read_MAF(path, ...)

Arguments

path	path to MAF file
...	other maftools::mutCountMatrix arguments

Value

the mutational (sparse) matrix associated to the MAF file

Examples

read_MAF(system.file("extdata", "paac_jhu_2014_500.maf", package = "CIMICE", mustWork = TRUE))

redsnic/CIMICE documentation built on March 30, 2022, 2:46 a.m.