loadData: Load and assemble MultiAssayExperiments from files

In waldronlab/MultiAssayExperiment.TCGA: Pipeline for the integration of multi-omics experiments in Bioconductor

Load and assemble MultiAssayExperiments from files

Description

loadData takes cancer, data type, and storage inputs to piece together a working MultiAssayExperiment object

Usage

loadData(cancer, dataType, runDate, serialDir, mapDir, force)

Arguments

cancer	A single character string indicating the TCGA disease code
dataType	A character vector of TCGA assay types
runDate	A single string indicating the Firehose run date, usually '20160128'
serialDir	The directory corresponding to the serialized data from RTCGAToolbox
mapDir	A single string indicating the directory where sampleMaps are stored from 'saveMapData'
force	(logical) Whether to resave all sample maps to the map directory

Value

A harmonized MultiAssayExperiment object

waldronlab/MultiAssayExperiment.TCGA documentation built on May 19, 2023, 6:06 p.m.