maftools: tcgaDriverBP – R documentation

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tcgaDriverBP

Compare genes to known TCGA drivers and their biological pathways

Description

A small function which uses known cancer driver genes and their associatd pathways from TCGA cohorts. See reference for details

Usage

tcgaDriverBP(m, genes = NULL, top = 20, fontSize = 0.7)

Arguments

`m`	an `MAF` object
`genes`	genes to compare. Default 'NULL'.
`top`	Top number of genes to use. Mutually exclusive with 'genes' argument. Default 20
`fontSize`	Default 0.7

References

Bailey MH, Tokheim C, Porta-Pardo E, et al. Comprehensive Characterization of Cancer Driver Genes and Mutations . Cell. 2018;173(2):371–385.e18. doi:10.1016/j.cell.2018.02.060

Examples

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