API for TCGAbiolinks
TCGAbiolinks: An R/Bioconductor package for integrative analysis with GDC data

Global functions
BRCA_rnaseqv2 Man page
GDCclientExists Source code
GDCclientInstall Source code
GDCclientPath Source code
GDCdownload Man page Source code
GDCdownload.aux Source code
GDCdownload.by.chunk Source code
GDCprepare Man page Source code
GDCprepare_clinic Man page Source code
GDCquery Man page Source code
GDCquery_Maf Man page Source code
GDCquery_clinic Man page Source code
GeneSplitRegulon Man page Source code
GenesCutID Man page Source code
TCGAVisualize_volcano Man page Source code
TCGAanalyze_Clustering Man page Source code
TCGAanalyze_DEA Man page Source code
TCGAanalyze_DEA_Affy Man page Source code
TCGAanalyze_DMR Man page Source code
TCGAanalyze_EA Man page Source code
TCGAanalyze_EAcomplete Man page Source code
TCGAanalyze_Filtering Man page Source code
TCGAanalyze_LevelTab Man page Source code
TCGAanalyze_Normalization Man page Source code
TCGAanalyze_Pathview Man page Source code
TCGAanalyze_Preprocessing Man page Source code
TCGAanalyze_SurvivalKM Man page Source code
TCGAanalyze_analyseGRN Man page Source code
TCGAanalyze_networkInference Man page Source code
TCGAanalyze_survival Man page Source code
TCGAbiolinks Man page
TCGAbiolinks-package Man page
TCGAprepare_Affy Man page Source code
TCGAquery_MatchedCoupledSampleTypes Man page Source code
TCGAquery_SampleTypes Man page Source code
TCGAquery_subtype Man page Source code
TCGAvisualize_BarPlot Man page Source code
TCGAvisualize_EAbarplot Man page Source code
TCGAvisualize_Heatmap Man page Source code
TCGAvisualize_PCA Man page Source code
TCGAvisualize_SurvivalCoxNET Man page Source code
TCGAvisualize_meanMethylation Man page Source code
TCGAvisualize_oncoprint Man page Source code
TCGAvisualize_starburst Man page Source code
addFFPE Source code
addFilter Source code
batch.info Man page
bcgsc.ca_CHOL.IlluminaHiSeq_DNASeq.1.somatic.maf Man page
calculate.pvalues Man page Source code
checkAlreadyDownloaded Source code
checkBarcodeDefinition Source code
checkDataCategoriesInput Source code
checkDataTypeInput Source code
checkLegacyPlatform Source code
checkProjectInput Source code
chol_maf Man page
clinBRCA Man page
colDataPrepare Man page Source code
colDataPrepareTARGET Source code
colDataPrepareTCGA Source code
dataBRCA Man page
dataDEGsFiltLevel Man page
dataREAD Man page
dataREAD_df Man page
diffmean Man page Source code
expandBarcodeInfo Source code
gaiaCNVplot Man page Source code
gbm.exp.harmonized Man page
gbm.exp.legacy Man page
geneInfo Man page
geneInfoHT Man page
generateManifest Source code
get.GRCh.bioMart Source code
get.cnv Source code
get.mut.gistc Source code
get.mut.gistc.information Source code
get.mutation Source code
getAdjacencyBiogrid Man page Source code
getBarcodeDefinition Source code
getBarcodeInfo Source code
getDataCategorySummary Man page Source code
getFFPE Source code
getGDCInfo Man page Source code
getGDCprojects Man page Source code
getGDCquery Source code
getGistic Man page Source code
getMetPlatInfo Source code
getNbCases Source code
getNbFiles Source code
getProjectSummary Source code
getResults Man page Source code
getTSS Man page Source code
getURL Source code
ggbiplot Man page Source code
humanReadableByteCount Source code
is.linux Source code
is.mac Source code
is.windows Source code
isServeOK Man page Source code
makeSEfromDNAmethylation Source code
makeSEfromGeneExpressionQuantification Source code
makeSEfromTranscriptomeProfiling Source code
map.ensg Source code
matchedMetExp Man page Source code
met.gbm.27k Man page
move Source code
msi_results Man page
onAttach Source code
parseXML Source code
print.header Source code
quantileNormalization Source code
readClinical Source code
readCopyNumberVariation Source code
readDNAmethylation Source code
readGeneExpressionQuantification Source code
readIsoformExpressionQuantification Source code
readProteinExpression Source code
readSimpleNucleotideVariationMaf Source code
readTranscriptomeProfiling Source code
readmiRNAIsoformQuantification Source code
remove.files.recursively Source code
tabSurvKMcompleteDEGs Man page
unlistlabels Source code
TCGAbiolinks documentation built on Dec. 8, 2017, 2:02 a.m.