| BiospecimenCoreResource |
Man page
|
| BroadAfter5NNTotalCopyNumberTcgaDataFile |
Man page
|
| BroadAfter5NNTotalCopyNumberTcgaDataFileSet |
Man page
|
| BroadAlleleSpecificCopyNumberTcgaDataFile |
Man page
|
| BroadAlleleSpecificCopyNumberTcgaDataFileSet |
Man page
|
| BroadAlleleSpecificThetaTcgaDataFile |
Man page
|
| BroadAlleleSpecificThetaTcgaDataFileSet |
Man page
|
| BroadBirdseedGenotypeTcgaDataFile |
Man page
|
| BroadBirdseedGenotypeTcgaDataFile.exportGenotypeCallsAndConfiden |
Man page
|
| BroadBirdseedGenotypeTcgaDataFileSet |
Man page
|
| BroadTotalCopyNumberTcgaDataFile |
Man page
|
| BroadTotalCopyNumberTcgaDataFileSet |
Man page
|
| HarvardTotalCopyNumberTcgaDataFile |
Man page
|
| HarvardTotalCopyNumberTcgaDataFileSet |
Man page
|
| HudsonAlphaBAlleleFreqTcgaDataFile |
Man page
|
| HudsonAlphaBAlleleFreqTcgaDataFileSet |
Man page
|
| HudsonAlphaGenotypeTcgaDataFile |
Man page
|
| HudsonAlphaGenotypeTcgaDataFile.exportGenotypeCalls |
Man page
|
| HudsonAlphaGenotypeTcgaDataFileSet |
Man page
|
| HudsonAlphaXYTcgaDataFile |
Man page
|
| HudsonAlphaXYTcgaDataFileSet |
Man page
|
| MageTabDataMatrixFile |
Man page
|
| MageTabDataMatrixFileSet |
Man page
|
| MageTabFile |
Man page
|
| MageTabFileSet |
Man page
|
| MscnExport |
Man page
|
| MskccTotalCopyNumberTcgaDataFile |
Man page
|
| MskccTotalCopyNumberTcgaDataFileSet |
Man page
|
| MultisourceChromosomalModel |
Man page
|
| MultisourceChromosomalModel.getChromosomes |
Man page
|
| MultisourceChromosomalModel.getNames |
Man page
|
| MultisourceChromosomalModel.nbrOfArrays |
Man page
|
| MultisourceCopyNumberChromosomalModel |
Man page
|
| MultisourceCopyNumberChromosomalModel.fit |
Man page
|
| Non-documented objects |
Man page
|
| RawMultisourceCopyNumberModel |
Man page
|
| SdrfFile |
Man page
|
| SdrfFileSet |
Man page
|
| TcgaDataFile |
Man page
|
| TcgaDataFileSet |
Man page
|
| TcgaDccData |
Man page
|
| TcgaDccDownloader |
Man page
|
| TcgaFullNameTranslators |
Man page
|
| appendFullNameTranslatorBySdrfFile |
Man page
|
| appendFullNameTranslatorBySdrfFile.FullNameInterface |
Man page
|
| appendFullNameTranslatorBySdrfFileSet |
Man page
|
| appendFullNameTranslatorBySdrfFileSet.FullNameInterface |
Man page
|
| appendFullNamesTranslatorBySdrfFile |
Man page
|
| appendFullNamesTranslatorBySdrfFile.GenericDataFileSet |
Man page
|
| appendFullNamesTranslatorBySdrfFileSet |
Man page
|
| appendFullNamesTranslatorBySdrfFileSet.GenericDataFileSet |
Man page
|
| aroma.tcga |
Man page
|
| aroma.tcga-package |
Man page
|
| as.character.MultisourceChromosomalModel |
Man page
|
| as.character.TcgaDccDownloader |
Man page
|
| byPath.MageTabFileSet |
Man page
|
| byPath.SdrfFileSet |
Man page
|
| clearCache.MultisourceChromosomalModel |
Man page
|
| downloadCoreTextFile |
Man page
|
| downloadCoreTextFile.TcgaDccDownloader |
Man page
|
| downloadFile |
Man page
|
| downloadFile.TcgaDccDownloader |
Man page
|
| downloadFiles |
Man page
|
| downloadFiles.TcgaDccDownloader |
Man page
|
| downloadFilesByPattern |
Man page
|
| downloadFilesByPattern.TcgaDccDownloader |
Man page
|
| downloadUrl |
Man page
|
| downloadUrl.TcgaDccDownloader |
Man page
|
| exportGenotypeCalls |
Man page
|
| exportGenotypeCalls,HudsonAlphaGenotypeTcgaDataFile-method |
Man page
|
| exportGenotypeCalls.HudsonAlphaGenotypeTcgaDataFile |
Man page
Man page
|
| exportGenotypeCalls.HudsonAlphaGenotypeTcgaDataFileSet |
Man page
|
| exportGenotypeCallsAndConfidenceScores |
Man page
|
| exportGenotypeCallsAndConfidenceScores,BroadBirdseedGenotypeTcga |
Man page
|
| exportGenotypeCallsAndConfidenceScores.BroadBirdseedGenotypeTcga |
Man page
Man page
Man page
|
| exportTotal |
Man page
|
| exportTotal.HarvardTotalCopyNumberTcgaDataFile |
Man page
|
| exportTotal.HarvardTotalCopyNumberTcgaDataFileSet |
Man page
|
| exportTotal.MskccTotalCopyNumberTcgaDataFile |
Man page
|
| exportTotal.MskccTotalCopyNumberTcgaDataFileSet |
Man page
|
| exportTotalAndFracB |
Man page
|
| exportTotalAndFracB.BroadAfter5NNTotalCopyNumberTcgaDataFileSet |
Man page
|
| exportTotalAndFracB.BroadTotalCopyNumberTcgaDataFile |
Man page
|
| exportTotalAndFracB.BroadTotalCopyNumberTcgaDataFileSet |
Man page
|
| exportTotalAndFracB.HudsonAlphaBAlleleFreqTcgaDataFile |
Man page
|
| exportTotalAndFracB.HudsonAlphaBAlleleFreqTcgaDataFileSet |
Man page
|
| exportTotalAndFracB.HudsonAlphaXYTcgaDataFile |
Man page
|
| exportTotalAndFracB.HudsonAlphaXYTcgaDataFileSet |
Man page
|
| extractAlleleSpecificCopyNumbers |
Man page
|
| extractAlleleSpecificCopyNumbers.BroadAlleleSpecificCopyNumberTc |
Man page
|
| extractByTcgaType |
Man page
|
| extractByTcgaType.GenericDataFileSet |
Man page
|
| extractCalls.BroadBirdseedGenotypeTcgaDataFile |
Man page
|
| extractCalls.HudsonAlphaGenotypeTcgaDataFile |
Man page
|
| extractConfidenceScores |
Man page
|
| extractConfidenceScores.BroadBirdseedGenotypeTcgaDataFile |
Man page
|
| extractFracB |
Man page
|
| extractFracB.HudsonAlphaBAlleleFreqTcgaDataFile |
Man page
|
| extractRawCopyNumbers.MultisourceCopyNumberChromosomalModel |
Man page
|
| extractRawGenomicSignals.MultisourceChromosomalModel |
Man page
|
| extractTheta |
Man page
|
| extractTheta.BroadAlleleSpecificThetaTcgaDataFile |
Man page
|
| extractTheta.HudsonAlphaXYTcgaDataFile |
Man page
|
| extractTotalAndFracB |
Man page
|
| extractTotalAndFracB.BroadAlleleSpecificCopyNumberTcgaDataFile |
Man page
|
| extractTotalAndFracB.BroadAlleleSpecificThetaTcgaDataFile |
Man page
|
| extractTotalAndFracB.BroadTotalCopyNumberTcgaDataFile |
Man page
|
| extractTotalAndFracB.HudsonAlphaXYTcgaDataFile |
Man page
|
| extractTotalCopyNumbers |
Man page
|
| extractTotalCopyNumbers.BroadTotalCopyNumberTcgaDataFile |
Man page
|
| extractTotalCopyNumbers.HarvardTotalCopyNumberTcgaDataFile |
Man page
|
| extractTotalCopyNumbers.MskccTotalCopyNumberTcgaDataFile |
Man page
|
| extractTotalLog2CopyNumbers |
Man page
|
| extractTotalLog2CopyNumbers.HarvardTotalCopyNumberTcgaDataFile |
Man page
|
| extractTotalLog2CopyNumbers.MskccTotalCopyNumberTcgaDataFile |
Man page
|
| extractTumorNormalPairs |
Man page
|
| extractTumorNormalPairs.GenericDataFileSet |
Man page
|
| findDataSets |
Man page
|
| findDataSets.TcgaDccData |
Man page
|
| findDataSets2 |
Man page
|
| findDataSets2.TcgaDccData |
Man page
|
| fit,MultisourceCopyNumberChromosomalModel-method |
Man page
|
| fit.MultisourceChromosomalModel |
Man page
|
| fit.MultisourceCopyNumberChromosomalModel |
Man page
Man page
|
| getAccessRoot |
Man page
|
| getAccessRoot.TcgaDccDownloader |
Man page
|
| getArchive |
Man page
|
| getArchive.TcgaDccDownloader |
Man page
|
| getAsteriskTags.MultisourceChromosomalModel |
Man page
|
| getBarcodeIdTranslator |
Man page
|
| getBarcodeIdTranslator.TcgaFullNameTranslators |
Man page
|
| getBarcodeIdTranslators |
Man page
|
| getBarcodeIdTranslators.TcgaFullNameTranslators |
Man page
|
| getBarcodePattern |
Man page
|
| getBarcodePattern.BiospecimenCoreResource |
Man page
|
| getBarcodePatterns |
Man page
|
| getBarcodePatterns.BiospecimenCoreResource |
Man page
|
| getCenter |
Man page
|
| getCenter.TcgaDccDownloader |
Man page
|
| getCenterType |
Man page
|
| getCenterType.TcgaDccDownloader |
Man page
|
| getChipType.MultisourceChromosomalModel |
Man page
|
| getChipTypes.MultisourceChromosomalModel |
Man page
|
| getChromosomes,MultisourceChromosomalModel-method |
Man page
|
| getChromosomes.MultisourceChromosomalModel |
Man page
Man page
|
| getColumnNames.MskccTotalCopyNumberTcgaDataFile |
Man page
|
| getDataSet |
Man page
|
| getDataSet.TcgaDccDownloader |
Man page
|
| getDataSetList |
Man page
|
| getDataSetList.MultisourceChromosomalModel |
Man page
|
| getDataSetName |
Man page
|
| getDataSetName.TcgaDccDownloader |
Man page
|
| getDataSetPattern |
Man page
|
| getDataSetPattern.TcgaDccData |
Man page
|
| getDataSetPatterns |
Man page
|
| getDataSetPatterns.TcgaDccData |
Man page
|
| getDataType |
Man page
|
| getDataType.TcgaDccDownloader |
Man page
|
| getDefaultFullName.TcgaDataFileSet |
Man page
|
| getExtensionPattern.BroadAfter5NNTotalCopyNumberTcgaDataFile |
Man page
|
| getExtensionPattern.BroadAlleleSpecificCopyNumberTcgaDataFile |
Man page
|
| getExtensionPattern.BroadAlleleSpecificThetaTcgaDataFile |
Man page
|
| getExtensionPattern.BroadBirdseedGenotypeTcgaDataFile |
Man page
|
| getExtensionPattern.BroadTotalCopyNumberTcgaDataFile |
Man page
|
| getExtensionPattern.HarvardTotalCopyNumberTcgaDataFile |
Man page
|
| getExtensionPattern.HudsonAlphaBAlleleFreqTcgaDataFile |
Man page
|
| getExtensionPattern.HudsonAlphaGenotypeTcgaDataFile |
Man page
|
| getExtensionPattern.HudsonAlphaXYTcgaDataFile |
Man page
|
| getExtensionPattern.TcgaDataFile |
Man page
|
| getExtractNameByFilename |
Man page
|
| getExtractNameByFilename.SdrfFile |
Man page
|
| getFilenameMap |
Man page
|
| getFilenameMap.SdrfFile |
Man page
|
| getFilenameMap.SdrfFileSet |
Man page
|
| getFilenamePattern |
Man page
|
| getFilenamePattern.BroadAlleleSpecificCopyNumberTcgaDataFile |
Man page
|
| getFilenamePattern.BroadAlleleSpecificThetaTcgaDataFile |
Man page
|
| getFilenamePattern.BroadTotalCopyNumberTcgaDataFile |
Man page
|
| getFilenamePattern.TcgaDataFile |
Man page
|
| getFullName.MultisourceChromosomalModel |
Man page
|
| getFullNameTranslator.MscnExport |
Man page
|
| getFullNames.MultisourceChromosomalModel |
Man page
|
| getGenome.MultisourceChromosomalModel |
Man page
|
| getGenomeData.MultisourceChromosomalModel |
Man page
|
| getGenomeFile.MultisourceChromosomalModel |
Man page
|
| getHeader.MageTabDataMatrixFile |
Man page
|
| getKnownFilePatterns |
Man page
|
| getKnownFilePatterns.TcgaDccDownloader |
Man page
|
| getName.MultisourceChromosomalModel |
Man page
|
| getNames,MultisourceChromosomalModel-method |
Man page
|
| getNames.MultisourceChromosomalModel |
Man page
Man page
|
| getParentPath.MultisourceChromosomalModel |
Man page
|
| getPassword |
Man page
|
| getPassword.TcgaDccDownloader |
Man page
|
| getPath.MultisourceChromosomalModel |
Man page
|
| getPlatform.TcgaDccDownloader |
Man page
|
| getProtocol |
Man page
|
| getProtocol.TcgaDccDownloader |
Man page
|
| getReadArguments.BroadAlleleSpecificCopyNumberTcgaDataFile |
Man page
|
| getReadArguments.BroadAlleleSpecificThetaTcgaDataFile |
Man page
|
| getReadArguments.BroadBirdseedGenotypeTcgaDataFile |
Man page
|
| getReadArguments.BroadTotalCopyNumberTcgaDataFile |
Man page
|
| getReadArguments.HarvardTotalCopyNumberTcgaDataFile |
Man page
|
| getReadArguments.HudsonAlphaBAlleleFreqTcgaDataFile |
Man page
|
| getReadArguments.HudsonAlphaGenotypeTcgaDataFile |
Man page
|
| getReadArguments.HudsonAlphaXYTcgaDataFile |
Man page
|
| getReadArguments.MageTabDataMatrixFile |
Man page
|
| getReadArguments.MskccTotalCopyNumberTcgaDataFile |
Man page
|
| getReportPath.MultisourceChromosomalModel |
Man page
|
| getRootPath |
Man page
|
| getRootPath.MultisourceChromosomalModel |
Man page
|
| getRootPath.TcgaDccDownloader |
Man page
|
| getRootUrl |
Man page
|
| getRootUrl.TcgaDccDownloader |
Man page
|
| getSetTag.MultisourceChromosomalModel |
Man page
|
| getSetTag.RawMultisourceCopyNumberModel |
Man page
|
| getTags.MultisourceChromosomalModel |
Man page
|
| getTumorType |
Man page
|
| getTumorType.TcgaDccDownloader |
Man page
|
| getUrl.TcgaDccDownloader |
Man page
|
| getUrlPath |
Man page
|
| getUrlPath.TcgaDccDownloader |
Man page
|
| getUrlPathname |
Man page
|
| getUrlPathname.TcgaDccDownloader |
Man page
|
| getUsername.TcgaDccDownloader |
Man page
|
| hasFile.TcgaDccDownloader |
Man page
|
| hasFiles |
Man page
|
| hasFiles.TcgaDccDownloader |
Man page
|
| indexOf.MultisourceChromosomalModel |
Man page
|
| listFiles |
Man page
|
| listFiles.TcgaDccDownloader |
Man page
|
| makeFullNamesTranslator |
Man page
|
| makeFullNamesTranslator.SdrfFile |
Man page
|
| makeFullNamesTranslator.SdrfFileSet |
Man page
|
| nbrOfArrays,MultisourceChromosomalModel-method |
Man page
|
| nbrOfArrays.MultisourceChromosomalModel |
Man page
Man page
|
| nbrOfSources |
Man page
|
| nbrOfSources.MultisourceChromosomalModel |
Man page
|
| parseSdrfExtractName |
Man page
|
| parseTcgaDccArchiveName |
Man page
|
| parseTcgaDccArchiveName.character |
Man page
Man page
|
| pruneSDRF |
Man page
|
| readBCRSamplesTable |
Man page
|
| readBCRSamplesTable.TcgaDccDownloader |
Man page
|
| readDescription |
Man page
|
| readDescription.TcgaDccDownloader |
Man page
|
| readIdf |
Man page
|
| readIdf.TcgaDccDownloader |
Man page
|
| readLines |
Man page
|
| readLines.TcgaDccDownloader |
Man page
|
| readLines.default |
Man page
|
| readManifest |
Man page
|
| readManifest.TcgaDccDownloader |
Man page
|
| readReadme |
Man page
|
| readReadme.TcgaDccDownloader |
Man page
|
| readSDRFFile |
Man page
|
| readSDRFFolder |
Man page
|
| readSampleInfo |
Man page
|
| readSampleInfo.TcgaDccDownloader |
Man page
|
| readSdrf |
Man page
|
| readSdrf.TcgaDccDownloader |
Man page
|
| readTextFile |
Man page
|
| readTextFile.TcgaDccDownloader |
Man page
|
| setFullNamesTranslatorBySdrfFile |
Man page
|
| setFullNamesTranslatorBySdrfFile.GenericDataFileSet |
Man page
|
| setFullNamesTranslatorBySdrfFileSet |
Man page
|
| setFullNamesTranslatorBySdrfFileSet.GenericDataFileSet |
Man page
|
| setGenome.MultisourceChromosomalModel |
Man page
|
| setLogin |
Man page
|
| setLogin.TcgaDccDownloader |
Man page
|
| setName.MultisourceChromosomalModel |
Man page
|
| setPassword |
Man page
|
| setPassword.TcgaDccDownloader |
Man page
|
| setUsername |
Man page
|
| setUsername.TcgaDccDownloader |
Man page
|
| tcgaDccFullnameTranslator |
Man page
|
| tcgaDccFullnameTranslator.character |
Man page
Man page
|
