maftools: mafSummary – R documentation

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mafSummary

Summary statistics of MAF

Description

Summarizes genes and samples irrespective of the type of alteration. This is different from getSampleSummary and getGeneSummary which returns summaries of only non-synonymous variants.

Usage

mafSummary(maf)

Arguments

maf

an MAF object generated by read.maf

Details

This function takes MAF object as input and returns summary table.

Value

Returns a list of summarized tables

Examples

laml.maf <- system.file("extdata", "tcga_laml.maf.gz", package = "maftools")
laml <- read.maf(maf = laml.maf)
mafSummary(maf = laml)

maftools

Summarize, Analyze and Visualize MAF Files

v2.6.05

MIT + file LICENSE

Authors

Anand Mayakonda [aut, cre] (<https://orcid.org/0000-0003-1162-687X>)

Initial release

2015-12-14