fetch_TCGA_mutations: Add an Mutation Column to an Expression set made by...

In w2felix/TCGADataFelix: Analyzing the TCGA Data according to gene expression and survival

Description

Add an Mutation Column to an Expression set made by build_TCGA_Eset() from TCGA Mutation Data, downloaded from https://gdac.broadinstitute.org/ Please download the Mutation_Packager_Oncotated_Calls

Usage

fetch_TCGA_mutations(path, source)

Arguments

path	Path to the mutation Files downloaded from Firehose TCGA or path to the data_mutations_extended.txt file from cBioportal
source	Use "cBio"/"cBio_z_score" or "firehose" as a source

Value

Returns the Expression Set with added mutation data

Examples

## Not run: 
mutset <- fetch_TCGA_mutations(path = "~/R/Projects/TCGA-Elisa/KIRC.Mutation_Packager_Oncotated_Calls/", Eset = Eset)

## End(Not run)

w2felix/TCGADataFelix documentation built on May 19, 2019, 8:24 a.m.