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

### - p -

- p_label : pappso::masschroq::PeptideObservation::Observation
- PappsoException() : pappso::PappsoException
- parameterMapReady() : pappso::cbor::psm::PsmCbor2Json, pappso::cbor::psm::PsmFeatures, pappso::cbor::psm::PsmFileAppend, pappso::cbor::psm::PsmFileReaderBase, pappso::cbor::psm::PsmFileScanProcessAndCopy, pappso::cbor::psm::PsmIonSeries, pappso::cbor::psm::PsmNewEval, pappso::cbor::psm::PsmSpecGlob, pappso::cbor::psm::PsmSpecPeptidOms
- Parameters() : pappso::LocalSignalToNoiseEstimator::Parameters
- parent : pappso::FilterChargeDeconvolution::DataPointInfo
- parent_frame : pappso::TimsDdaPrecursors::SpectrumDescr
- parentIndex : pappso::spectree::SpecTree::SpecTreeNode
- parse() : pappso::FastaReader, pappso::OboPsiMod, pappso::OboPsiMs, pappso::OboUnimod
- parseDefinitionLabel() : pappso::OboTermForm
- parseFastaFile() : pappso::FastaFileIndexer
- parseFixedModification() : pappso::PeptideModificatorPipeline
- parseLabeledModification() : pappso::PeptideModificatorPipeline
- parseLine() : pappso::OboPsiModTerm
- parseMassSpectrumLine() : pappso::BafAsciiMsRunReader
- parseMsRunFilename() : pappso::cbor::psm::SageTsvHandler
- parseNoConstString() : pappso::PeptideProFormaParser, pappso::PeptideStrParser
- parseOnlyOne() : pappso::FastaReader
- parsePeptide() : pappso::cbor::psm::SageTsvHandler
- parsePotentialModification() : pappso::PeptideModificatorPipeline
- parseProteins() : pappso::cbor::psm::SageTsvHandler
- parseSpectrumStringId() : pappso::cbor::psm::SageTsvHandler
- parseString() : pappso::PeptideProFormaParser, pappso::PeptideStrParser
- parseStringToPeptide() : pappso::PeptideProFormaParser, pappso::PeptideStrParser
- peak : pappso::SimplePeakIonMatch, pappso::specpeptidoms::CorrectionTree
- peak_mz : pappso::specglob::ExperimentalSpectrumDataPoint
- peakChanged() : pappso::MassSpectrumWidget
- peakChangeEvent() : pappso::MassSpectrumWidget
- peakCount : pappso::MassSpectrumLineData
- PeakIonIsotopeMatch() : pappso::PeakIonIsotopeMatch
- PeakIonMatch() : pappso::PeakIonMatch
- peakList : pappso::MassSpectrumLineData
- peaks : pappso::specpeptidoms::Alignment
- peakShapeType : pappso::MassSpectrumLineData
- peakType() : pappso::specpeptidoms::SpOMSSpectrum
- Peptide() : pappso::masschroq::Peptide, pappso::Peptide
- peptide : pappso::cbor::psm::MzIdentMlReader::MzidPeptideEvidence, pappso::cbor::psm::MzIdentMlReader::SpectrumIdentificationItem
- peptide_len : pappso::cbor::psm::SageTsvHandler::Line
- peptide_q : pappso::cbor::psm::SageTsvHandler::Line
- peptide_sequence_li : pappso::cbor::psm::SageTsvHandler::Psm
- peptideAnnotate() : pappso::MassSpectrumWidget
- PeptideBase() : pappso::masschroq::PeptideBase
- PeptideBuilder() : pappso::PeptideBuilder
- PeptideFixedModificationBuilder() : pappso::PeptideFixedModificationBuilder
- PeptideFragment() : pappso::PeptideFragment
- PeptideFragmentIon() : pappso::PeptideFragmentIon
- PeptideFragmentIonListBase() : pappso::PeptideFragmentIonListBase
- PeptideIsotopeSpectrumMatch() : pappso::PeptideIsotopeSpectrumMatch
- PeptideLabel() : pappso::masschroq::PeptideLabel
- peptideListSize() : pappso::GrpSubGroup
- PeptideMeasurements() : pappso::masschroq::PeptideMeasurements
- PeptideMeasurementsBase() : pappso::masschroq::PeptideMeasurementsBase
- PeptideMethioninRemove() : pappso::PeptideMethioninRemove
- PeptideModel() : pappso::specglob::PeptideModel, pappso::specpeptidoms::PeptideModel
- PeptideModificatorBase() : pappso::PeptideModificatorBase
- PeptideModificatorPipeline() : pappso::PeptideModificatorPipeline
- PeptideModificatorTee() : pappso::PeptideModificatorTee
- PeptideNaturalIsotope() : pappso::PeptideNaturalIsotope
- PeptideNaturalIsotopeAverage() : pappso::PeptideNaturalIsotopeAverage
- PeptideNaturalIsotopeList() : pappso::PeptideNaturalIsotopeList
- PeptideObservation() : pappso::masschroq::PeptideObservation
- PeptideProFormaParser : pappso::Peptide
- PeptideRawFragmentMasses() : pappso::PeptideRawFragmentMasses
- PeptideSemiEnzyme() : pappso::PeptideSemiEnzyme
- PeptideSizeFilter() : pappso::PeptideSizeFilter
- PeptideSpectrum() : pappso::specglob::PeptideSpectrum
- PeptideSpectrumMatch() : pappso::PeptideSpectrumMatch
- PeptideVariableModificationBuilder() : pappso::PeptideVariableModificationBuilder
- PeptideVariableModificationReplacement() : pappso::PeptideVariableModificationReplacement
- perfectShiftPossible() : pappso::specpeptidoms::SemiGlobalAlignment
- perfectShiftPossibleEnd() : pappso::specpeptidoms::SemiGlobalAlignment
- perfectShiftPossibleFrom0() : pappso::specpeptidoms::SemiGlobalAlignment
- pick() : pappso::HighResPeakPicker
- plot() : pappso::MassSpectrumWidget, pappso::XicWidget
- plotRangesChangedSignal() : pappso::BasePlotWidget
- plottableDestructionRequestedSignal() : pappso::BasePlotWidget
- plottableSelectionChangedSignal() : pappso::BasePlotWidget
- point : pappso::IntegrationScope, pappso::QPointFJs
- pointChanged() : pappso::IntegrationScope
- pointerToString() : pappso::Utils
- poisson : pappso::cbor::psm::SageTsvHandler::Line
- populateIonMobilityGrid() : pappso::masschroq::Peptide
- populateProteinMapUsingOldProteinMap() : pappso::cbor::psm::CborScanMapBase
- positions : pappso::cbor::psm::PsmCborUtils::PsmProteinRef, pappso::cbor::psm::PsmFileReaderBase::PsmProteinRef
- posterior_error : pappso::cbor::psm::SageTsvHandler::Line
- postExtractionProcess() : pappso::MsRunXicExtractorInterface
- postProcessingAlign() : pappso::specpeptidoms::SemiGlobalAlignment
- PostTreatment() : pappso::specglob::PostTreatment
- PpmPrecision() : pappso::PpmPrecision
- preciseAlign() : pappso::specpeptidoms::SemiGlobalAlignment
- PrecisionBase() : pappso::PrecisionBase
- precisionChanged() : pappso::PrecisionWidget
- PrecisionFactory : pappso::DaltonPrecision, pappso::PpmPrecision, pappso::ResPrecision
- PrecisionWidget() : pappso::PrecisionWidget
- Precursor() : pappso::masschroq::Precursor
- precursor_id : pappso::TimsDdaPrecursors::SpectrumDescr
- precursor_ion_data : pappso::TimsDdaPrecursors::SpectrumDescr
- precursor_ppm : pappso::cbor::psm::SageTsvHandler::Line
- precursorIntensity : pappso::MsRunRetentionTime< T >::PeptideMs2Point
- PrecursorIonData() : pappso::PrecursorIonData
- precursorIonNodesByPrecursorMz() : pappso::MsRunDataSetTreeNode
- precursorList : pappso::cbor::mzcbor::Spectrum
- precursorListCvParamMap : pappso::cbor::mzcbor::Spectrum
- precursorNodeByProductSpectrumIndex() : pappso::MsRunDataSetTree
- precursorNodesByPrecursorMz() : pappso::MsRunDataSetTree
- PrecursorParser() : pappso::masschroq::PrecursorParser
- predicted_mobility : pappso::cbor::psm::SageTsvHandler::Line
- predicted_rt : pappso::cbor::psm::SageTsvHandler::Line
- prepareCborScanWithSpectrum() : pappso::cbor::psm::PsmCborUtils
- prepareCborScanWithSpectrumAndPeakList() : pappso::cbor::psm::PsmCborUtils
- prepareExtractor() : pappso::MsRunXicExtractorDisk
- prepareMeasurements() : pappso::masschroq::MbrPeptideMeasurements, pappso::masschroq::PeptideMeasurements
- prepareMeasurementsForPeptide() : pappso::masschroq::PeptideMeasurementsBase
- preprocessSpectrum() : pappso::specpeptidoms::SpOMSSpectrum
- pressedKeyCode : pappso::BasePlotContext
- pressedMouseButtons : pappso::BasePlotContext
- previous_column : pappso::specpeptidoms::ScenarioCell
- previous_row : pappso::specpeptidoms::ScenarioCell
- printInfos() : pappso::GrpMapPeptideToSubGroupSet, pappso::GrpPeptideSet, pappso::GrpSubGroupSet
- privAddFixedModificationString() : pappso::PeptideModificatorPipeline
- privAddPotentialModificationString() : pappso::PeptideModificatorPipeline
- privContainsAll() : pappso::GrpPeptideSet
- privMatchIonList() : pappso::PeptideSpectrumMatch
- process() : pappso::cbor::psm::CborScanMapBase, pappso::cbor::psm::PsmFeaturesScan, pappso::cbor::psm::PsmIonSeriesScan, pappso::cbor::psm::PsmSpecGlobScan, pappso::cbor::psm::PsmSpecPeptidOmsScan, pappso::XtandemSpectrumProcess
- process_group_note() : pappso::WrapTandemResults
- processBufferScan() : pappso::cbor::psm::PsmFileScanProcess
- processBufferScanDone() : pappso::cbor::psm::PsmFileScanProcess, pappso::cbor::psm::PsmFileScanProcessAndCopy, pappso::cbor::psm::PsmSpecGlob, pappso::cbor::psm::PsmSpecPeptidOms
- processDriftTime() : pappso::PwizMsRunReader
- processRetentionTime() : pappso::PwizMsRunReader
- productNodesByPrecursorMz() : pappso::MsRunDataSetTreeNode
- productNodesByPrecursorSpectrumIndex() : pappso::MsRunDataSetTree
- proforma : pappso::cbor::psm::SageTsvHandler::Psm
- ProjectParameters() : pappso::ProjectParameters
- protectedExtractXicCoordSPtrList() : pappso::MsRunXicExtractor, pappso::MsRunXicExtractorDisk, pappso::MsRunXicExtractorInterface, pappso::TimsDirectXicExtractor
- Protein() : pappso::masschroq::Protein, pappso::Protein
- protein : pappso::cbor::psm::MzIdentMlReader::MzidPeptideEvidence
- protein_list : pappso::cbor::psm::SageTsvHandler::Psm
- protein_q : pappso::cbor::psm::SageTsvHandler::Line
- protein_sp : pappso::cbor::psm::MzIdentMlReader::MzidDBSequence, pappso::cbor::psm::PsmProtein
- ProteinIntegerCode() : pappso::ProteinIntegerCode
- proteinMapReady() : pappso::cbor::psm::PsmFileReaderBase, pappso::cbor::psm::PsmFileScanProcessAndCopy, pappso::cbor::psm::PsmSpecPeptidOms
- ProteinPeptideList() : ProteinPeptideList
- ProteinPresenceAbsenceMatrix() : pappso::ProteinPresenceAbsenceMatrix
- ProteinPresenceAbsenceMatrixElement : pappso::ProteinPresenceAbsenceMatrix
- proteinPtr : pappso::specpeptidoms::Location
- psm_list : pappso::cbor::psm::SageTsvHandler::Scan
- PsmCbor2Json() : pappso::cbor::psm::PsmCbor2Json
- PsmFeatures() : pappso::cbor::psm::PsmFeatures, pappso::PsmFeatures
- PsmFeaturesScan() : pappso::cbor::psm::PsmFeaturesScan
- PsmFileAppend() : pappso::cbor::psm::PsmFileAppend
- PsmFileReaderBase() : pappso::cbor::psm::PsmFileReaderBase
- PsmFileScanProcess() : pappso::cbor::psm::PsmFileScanProcess
- PsmFileScanProcessAndCopy() : pappso::cbor::psm::PsmFileScanProcessAndCopy
- PsmIonSeries() : pappso::cbor::psm::PsmIonSeries
- PsmIonSeriesScan() : pappso::cbor::psm::PsmIonSeriesScan
- PsmNewEval() : pappso::cbor::psm::PsmNewEval
- PsmProteinMap() : pappso::cbor::psm::PsmProteinMap
- psmReady() : pappso::cbor::psm::PsmCbor2Json, pappso::cbor::psm::PsmFileReaderBase
- PsmSpecGlob() : pappso::cbor::psm::PsmSpecGlob
- PsmSpecGlobScan : pappso::cbor::psm::PsmSpecGlob, pappso::cbor::psm::PsmSpecGlobScan
- PsmSpecPeptidOms() : pappso::cbor::psm::PsmSpecPeptidOms
- PsmSpecPeptidOmsScan : pappso::cbor::psm::PsmSpecPeptidOms, pappso::cbor::psm::PsmSpecPeptidOmsScan
- push_back() : pappso::GrpProtein, pappso::spectree::Bucket
- pushBackIonMasses() : pappso::PeptideRawFragmentMasses
- pushBackIonMz() : pappso::PeptideRawFragmentMasses
- pushBackMatchSpectrum() : pappso::PeptideRawFragmentMasses
- pushBackXicCoordList() : pappso::masschroq::PeptideMeasurementsBase
- PwizMsFileReader() : pappso::PwizMsFileReader
- PwizMsRunReader() : pappso::PwizMsRunReader