getMapSpliceCohortFusionData: Load a mapplice cohort fusion file.

In jefferys/FusionExpressionPlot: Plot Expression Profiles for Fused Genes

Description

Load a mapplice cohort fusion file.

Usage

getMapSpliceCohortFusionData(file, all.columns = FALSE)

Arguments

file	The path to the data file to load.
all.columns	Set TRUE to load all columns from data file. By default (all.columns=FALSE) only loads and returns some columns (see below).

Value

By default only returns the following columns:

id	was the row number	original row number
gene1	was D_gene	donor side gene
gene2	was A_gene	acceptor side gene
gene1pos	was D_end	Last genomic donor side position
gene2pos	was A_end	First genomic acceptor side position
sample	was tcga_id	The sample name

If all.columns= TRUE, all of the other columns from the fusion data file will be kept, with the original names.

jefferys/FusionExpressionPlot documentation built on May 19, 2019, 3:59 a.m.