Here is a list of all functions with links to the classes they belong to:

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- r -

• raise() : pappso::PappsoException
• range() : pappso::IntegrationScope, pappso::IntegrationScopeBase, pappso::IntegrationScopeRect, pappso::IntegrationScopeRhomb, pappso::SelectionPolygon
• rangeX() : pappso::SelectionPolygon
• rangeY() : pappso::SelectionPolygon
• rawReaderSpectrumCollectionByMsLevel() : pappso::TimsDdaPrecursors
• rbegin() : pappso::Peptide
• read() : pappso::cbor::psm::SageReader, pappso::XmlStreamReaderInterface
• read_msrun_peptide_observations() : pappso::masschroq::JsonInput
• read_note() : pappso::XtandemPresetReader
• read_peptide_list() : pappso::masschroq::JsonInput
• read_protein_list() : pappso::masschroq::JsonInput
• readAction() : pappso::masschroq::JsonInput
• readAlignmentMethodSp() : pappso::masschroq::JsonInput
• readAnalysisCollectionItem() : pappso::cbor::psm::MzIdentMlReader
• readAnalysisData() : pappso::cbor::psm::MzIdentMlReader
• readAnalysisProtocolCollection() : pappso::cbor::psm::MzIdentMlReader
• readAnalysisSoftware() : pappso::cbor::psm::MzIdentMlReader
• readArray() : pappso::cbor::CborStreamReader
• readBinaryDataArray() : pappso::cbor::mzcbor::MzmlConvert
• readBinaryDataArrayList() : pappso::cbor::mzcbor::MzmlConvert
• readCbor() : pappso::cbor::mzcbor::ConvertToMzml, pappso::cbor::mzcbor::MzcborBuildIndexReader, pappso::cbor::mzcbor::MzcborCopyReplaceBase, pappso::cbor::mzcbor::MzcborIndexReader, pappso::cbor::mzcbor::MzcborReaderBase, pappso::cbor::psm::PsmFileReaderBase
• readCborArray() : pappso::cbor::CborStreamReader
• readCborMap() : pappso::cbor::CborStreamReader
• readCborValue() : pappso::cbor::CborStreamReader
• readCvParam() : pappso::cbor::psm::MzIdentMlReader
• readDataCollectionItem() : pappso::cbor::psm::MzIdentMlReader
• readDBSequence() : pappso::cbor::psm::MzIdentMlReader
• readFile() : pappso::XmlStreamReaderInterface
• readInformations() : pappso::cbor::psm::PsmFileReaderBase
• readInputs() : pappso::cbor::psm::MzIdentMlReader
• readIntensity() : pappso::TimsDataFastMap
• readJson() : pappso::cbor::psm::SageFileReader
• readLog() : pappso::cbor::psm::PsmFileReaderBase
• readMap() : pappso::cbor::psm::PsmProteinMap
• readMsrun() : pappso::cbor::mzcbor::MzcborBuildIndexReader, pappso::cbor::mzcbor::MzcborReaderBase, pappso::cbor::mzcbor::MzcborSpectrumCollectionReader
• readMzDataFiles() : pappso::masschroq::JsonInput
• readParameterMap() : pappso::cbor::psm::PsmFileReaderBase
• readPeptide() : pappso::cbor::psm::MzIdentMlReader
• readPeptideEvidence() : pappso::cbor::psm::MzIdentMlReader
• readProjectParameters() : pappso::masschroq::JsonInput
• readProteinMap() : pappso::cbor::psm::PsmCbor2Json, pappso::cbor::psm::PsmFileReaderBase
• readPsm() : pappso::cbor::psm::PsmFileReaderBase
• readPsmFile() : pappso::cbor::psm::PsmFileReaderBase
• readPsmProteinRef() : pappso::cbor::psm::PsmFileReaderBase
• readQuantificationMethodSp() : pappso::masschroq::JsonInput
• readReferenceableParamGroupList() : pappso::cbor::mzcbor::MzcborReaderBase
• readRoot() : pappso::cbor::mzcbor::ConvertToMzml, pappso::cbor::mzcbor::MzcborCopyReplaceBase, pappso::cbor::mzcbor::MzcborIndexReader, pappso::cbor::mzcbor::MzcborReaderBase, pappso::cbor::psm::PsmFileReaderBase
• readRun() : pappso::cbor::mzcbor::MzcborCopyReplaceBase
• readSample() : pappso::cbor::psm::PsmFileAppend, pappso::cbor::psm::PsmFileReaderBase
• readScan() : pappso::cbor::mzcbor::MzcborSpectrumCollectionReader, pappso::cbor::psm::PsmFileReaderBase, pappso::cbor::psm::PsmFileScanProcess
• readScanCvParams() : pappso::cbor::mzcbor::Spectrum
• readSearchDatabase() : pappso::cbor::psm::MzIdentMlReader
• readSequenceCollectionItem() : pappso::cbor::psm::MzIdentMlReader
• readSpectraData() : pappso::cbor::psm::MzIdentMlReader
• readSpectrum() : pappso::cbor::mzcbor::MzcborBuildIndexReader, pappso::cbor::mzcbor::MzcborSpectrumCollectionReader
• readSpectrumCollection() : pappso::BafAsciiMsRunReader, pappso::MsRunReader, pappso::MzcborMsRunReader, pappso::PwizMsRunReader, pappso::TimsFramesMsRunReader, pappso::TimsMsRunReader, pappso::TimsMsRunReaderDia, pappso::TimsMsRunReaderMs2, pappso::TimsMsRunReaderMs2Selected, pappso::XyMsRunReader
• readSpectrumCollection2() : pappso::BafAsciiMsRunReader, pappso::MsRunReader, pappso::MzcborMsRunReader, pappso::PwizMsRunReader, pappso::TimsFramesMsRunReader, pappso::TimsMsRunReader, pappso::TimsMsRunReaderDia, pappso::TimsMsRunReaderMs2, pappso::TimsMsRunReaderMs2Selected, pappso::XyMsRunReader
• readSpectrumCollectionByMsLevel() : pappso::BafAsciiMsRunReader, pappso::MsRunReader, pappso::MzcborMsRunReader, pappso::PwizMsRunReader, pappso::TimsFramesMsRunReader, pappso::TimsMsRunReader, pappso::TimsMsRunReaderDia, pappso::TimsMsRunReaderMs2, pappso::XyMsRunReader
• readSpectrumCollectionWithMsrunReadConfig() : pappso::MzcborMsRunReader, pappso::PwizMsRunReader
• readSpectrumIdentification() : pappso::cbor::psm::MzIdentMlReader
• readSpectrumIdentificationItem() : pappso::cbor::psm::MzIdentMlReader
• readSpectrumIdentificationResult() : pappso::cbor::psm::MzIdentMlReader
• readSpectrumList() : pappso::cbor::mzcbor::MzcborCopyReplaceBase
• readSpectrumListAndLeave() : pappso::cbor::mzcbor::MzcborBuildIndexReader, pappso::cbor::mzcbor::MzcborSpectrumCollectionReader
• readStream() : pappso::cbor::mzcbor::MzmlConvert, pappso::cbor::psm::MzIdentMlReader, pappso::WrapTandemInput, pappso::WrapTandemResults, pappso::XmlStreamReaderInterface, pappso::XtandemPresetReader
• readTandemPresetFile() : pappso::TandemWrapperRun
• readTimsFrame() : pappso::TimsFrameRawDataChunck
• readTsvFile() : pappso::cbor::psm::SageReader
• readUserParam() : pappso::cbor::psm::MzIdentMlReader
• readyReadStandardError() : pappso::TandemWrapperRun
• readyReadStandardOutput() : pappso::TandemWrapperRun
• realft() : pappso::FilterSavitzkyGolay
• recGenerateModel() : pappso::AaStringCodec
• reconstructTrace() : pappso::FilterLowIntensitySignalRemoval
• recordDragDirections() : pappso::BasePlotContext
• recordLine() : pappso::cbor::psm::SageTsvHandler
• recursiveDepletion() : pappso::PeptideNaturalIsotopeAverage
• redrawPlotBackground() : pappso::BasePlotWidget
• reduce() : pappso::cbor::psm::PsmProteinMap
• refreshBaseContext() : pappso::MassSpecTracePlotWidget
• releaseDevice() : pappso::BafAsciiMsRunReader, pappso::MsRunReader, pappso::MzcborMsRunReader, pappso::PwizMsRunReader, pappso::TimsMsRunReaderBase, pappso::TimsMsRunReaderMs2, pappso::XyMsRunReader
• remove() : pappso::GrpMapPeptideToSubGroupSet, pappso::GrpSubGroupSet
• removeAaModification() : pappso::Aa, pappso::Peptide
• removeAllButInternalModification() : pappso::Aa
• removeArtefactualSpike() : pappso::TimsDataFastMap
• removeBracketsForAlignedAA() : pappso::specglob::PeptideModel
• removeBucketsWithinCartIdRange() : pappso::spectree::BucketClustering
• removeCterAminoAcid() : pappso::Peptide
• removeDataSetQualMassSpectraOutsideDtOrRtRange() : pappso::MsRunDataSetTree
• removeDataSetTreeNodesOutsideDtOrRtRange() : pappso::MsRunDataSetTree
• removeFirstNonInformativeSubGroup() : pappso::GrpGroup
• removeNonInformativeSubGroups() : pappso::GrpExperiment, pappso::GrpGroup
• removeNterAminoAcid() : pappso::Peptide
• removeTraceInExclusionMargin() : pappso::FilterMzExclusion
• removeTranslationStop() : pappso::Protein
• removeUnsupportedMasses() : pappso::specpeptidoms::SpOMSSpectrum
• removeZeroValDataPointsChanged() : pappso::MzIntegrationParams
• removeZeroYDataPoints() : pappso::Trace
• removingNonInformativeSubGroupsInGroup() : pappso::GrpGroupingMonitor, pappso::GrpGroupingMonitorInterface
• rend() : pappso::Peptide
• replaceAaModification() : pappso::Aa, pappso::Peptide
• replaceAaModificationOnAminoAcid() : pappso::Peptide
• replaceLeucineIsoleucine() : pappso::AaBase, pappso::Peptide
• replaceModificationsAtPosition() : pappso::PeptideVariableModificationReplacement
• replaceWildcards() : pappso::Enzyme
• replotAll() : pappso::XicWidget
• replotWithAxesRanges() : pappso::BasePlotWidget
• replotWithAxisRangeX() : pappso::BasePlotWidget
• replotWithAxisRangeY() : pappso::BasePlotWidget
• reportSimilarity() : pappso::spectree::SpecXtractInterface, pappso::spectree::SpecXtractMap
• rescale() : pappso::MassSpectrumWidget, pappso::QCPSpectrum, pappso::QCPXic, pappso::XicWidget
• rescaleOneRange() : pappso::XicWidget
• reserve() : pappso::specpeptidoms::Scenario
• reset() : pappso::DataPoint, pappso::IntegrationScope, pappso::IntegrationScopeBase, pappso::IntegrationScopeRect, pappso::IntegrationScopeRhomb, pappso::MsRunReadConfig, pappso::MzIntegrationParams, pappso::specpeptidoms::Alignment, pappso::specpeptidoms::PeptideModel, pappso::XicCoord, pappso::XicCoordTims, pappso::XtandemHyperscoreBis
• resetAxesRangeHistory() : pappso::BasePlotWidget
• resetDeconvolutionData() : pappso::MassSpecTracePlotContext
• resetLocationSaver() : pappso::specpeptidoms::LocationSaver
• resetPoints() : pappso::SelectionPolygon
• resetScenario() : pappso::specpeptidoms::Scenario
• resetSelectionRectangle() : pappso::BasePlotWidget
• resolvingPowerComputationSignal() : pappso::MassSpecTracePlotWidget
• ResPrecision() : pappso::ResPrecision
• restoreAxesRangeHistory() : pappso::BasePlotWidget
• restorePreviousAxesRangeHistory() : pappso::BasePlotWidget
• reverse() : pappso::Peptide, pappso::Protein
• reverseFindDiffMz() : pappso::specglob::ExperimentalSpectrum
• rotate() : pappso::Peptide
• roundToDecimal32bitsAsLongLongInt() : pappso::Utils
• roundToDecimals() : pappso::Utils
• roundValueToDecimalPlaces() : pappso::Utils
• rowCount() : pappso::OboListModel
• rtChanged() : pappso::XicWidget
• rtChangeEvent() : pappso::XicWidget
• rtrim() : pappso::specglob::SpectralAlignment
• run() : pappso::TandemWrapperRun
• runFilter() : pappso::FilterSavitzkyGolay
• runTandem() : pappso::TandemWrapperRun