MultiAssayExperimentToMAF: Convert MultiAssayExperiment to MAF class

In waldronlab/MultiAssayExperiment: Software for the integration of multi-omics experiments in Bioconductor

Convert MultiAssayExperiment to MAF class

Description

Take a MultiAssayExperiment object with specific mutation assays and convert these into a maftools representation. The names provided via synAssay and nonSynAssay must match exactly those assays in the MultiAssayExperiment.

Usage

MultiAssayExperimentToMAF(x, synAssay = "maf_syn", nonSynAssay = "maf_nonSyn")

Arguments

x	A MultiAssayExperiment object
synAssay	character(1) The name of the ExperimentList element in the MultiAssayExperiment that identifies synonymous variant classifications (default "maf_syn").
nonSynAssay	character(1) The name of the ExperimentList element in the MultiAssayExperiment that identifies non-synonymous variant classifications (default "maf_nonSyn").

Value

A MAF class object

See Also

?maftools::MAF

waldronlab/MultiAssayExperiment documentation built on Nov. 4, 2024, 7:51 a.m.