getData: Extract data from FirehoseData object

In mksamur/RTCGAToolbox: A new tool for exporting TCGA Firehose data

Extract data from FirehoseData object

Description

A go-to function for getting top level information from a FirehoseData object. Available datatypes for a particular object can be seen by entering the object name in the console ('show' method).

Usage

getData(object, type, platform)

Arguments

object	A FirehoseData object
type	A data type to be extracted
platform	An index for data types that may come from multiple platforms (such as mRNAArray), for GISTIC data, one of the options: 'AllByGene' or 'ThresholdedByGene'

Value

Returns matrix or data.frame depending on data type

Examples

data(accmini)
getData(accmini, "clinical")
getData(accmini, "RNASeq2GeneNorm")
getData(accmini, "Methylation", 1)[1:4]

mksamur/RTCGAToolbox documentation built on Oct. 29, 2023, 10:06 p.m.