A new tool for exporting TCGA Firehose data

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Documentation for package ‘RTCGAToolbox’ version 1.0.1

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RTCGAToolbox-package RTCGAToolbox: A data client and basic analysis toolbox for Firehose TCGA data.
CorResult-class Class '"CorResult"'
DGEResult-class Class '"DGEResult"'
FirehoseCGHArray-class Class '"FirehoseCGHArray"'
FirehoseData-class Class '"FirehoseData"'
FirehoseGISTIC-class Class '"FirehoseGISTIC"'
FirehoseMethylationArray-class Class '"FirehoseMethylationArray"'
FirehosemRNAArray-class Class '"FirehosemRNAArray"'
getCNGECorrelation Correlation between copy number data and gene expression data.
getDiffExpressedGenes Get differentially expressed genes between tumor and normal samples.
getFirehoseAnalyzeDates Firehose data analyze run dates
getFirehoseData Firehose project data client
getFirehoseDatasets Get valid dataset alias.
getFirehoseRunningDates Get valid analysis dates.
getMutationRate Calculates the mutation ratio among the samples.
getReport Make report plot.
getSurvival Survival analysis based on gene expression value.
hg19.ucsc.gene.locations hg19 known gene symbol and locations
RTCGASample Sample TCGA Firehose data from BRCA dataset.
RTCGAToolbox RTCGAToolbox: A data client and basic analysis toolbox for Firehose TCGA data.