Here is a list of all class members with links to the classes they belong to:
- s -
- sanityCheck()
: pappso::Enzyme
- savePdf()
: pappso::MassSpectrumWidget
- SavGolParams()
: pappso::SavGolParams
- scan_mobility_end
: pappso::TimsData::SpectrumDescr
- scan_mobility_start
: pappso::TimsData::SpectrumDescr
- scanNumBegin
: pappso::XicCoordTims
- scanNumber2SpectrumIndex()
: pappso::MsRunReader
- scanNumEnd
: pappso::XicCoordTims
- SelectionPolygon()
: pappso::SelectionPolygon
- selectionPolygon
: pappso::SelectionPolygonSpec
- SelectionPolygonSpec()
: pappso::SelectionPolygonSpec
- selectMsRunReader()
: pappso::TimsMsFileReader
, pappso::XyMsFileReader
- serializeMsRun()
: pappso::MsRunXicExtractorDisk
- set()
: pappso::GrpMapPeptideToGroup
- set1D()
: pappso::SelectionPolygon
- set2D()
: pappso::SelectionPolygon
- setAccession()
: pappso::Protein
- setAccumulationTime()
: pappso::TimsFrameBase
- setAlignedRetentionTimeVector()
: pappso::MsRunRetentionTime< T >
- setApplyMzShift()
: pappso::MzIntegrationParams
- setArea()
: pappso::TracePeak
- setAxisLabelX()
: pappso::BasePlotWidget
- setAxisLabelY()
: pappso::BasePlotWidget
- setBinningType()
: pappso::MzIntegrationParams
- setBins()
: pappso::MassSpectrumCombiner
- setChargeMinimalFractionalPart()
: pappso::MassSpecTracePlotWidget
- setChargeStateEnvelopePeakSpan()
: pappso::MassSpecTracePlotWidget
- setColorMapPlotConfig()
: pappso::BaseColorMapPlotWidget
- setCurrentIndex()
: pappso::PrecisionWidget
- setDaltonValueChanged()
: pappso::PrecisionWidget
- setDecimalPlaces()
: pappso::MassDataCombinerInterface
, pappso::MzIntegrationParams
- setDescription()
: pappso::Protein
- setDetectionThresholdOnMaxmin()
: pappso::TraceDetectionZivy
- setDetectionThresholdOnMinmax()
: pappso::TraceDetectionZivy
- setDiffFormula()
: pappso::AaModification
- setDtInMilliSeconds()
: pappso::QualifiedMassSpectrum
- setDynamicRange()
: pappso::XtandemSpectrumProcess
- setEmptyMassSpectrum()
: pappso::QualifiedMassSpectrum
- setExcludeParent()
: pappso::XtandemSpectrumProcess
- setExcludeParentNeutralLoss()
: pappso::XtandemSpectrumProcess
- setFileName()
: pappso::MsRunId
- setFilterMorphoMaxMin()
: pappso::TraceDetectionZivy
- setFilterMorphoMean()
: pappso::TraceDetectionMoulon
, pappso::TraceDetectionZivy
- setFilterMorphoMinMax()
: pappso::TraceDetectionZivy
- setFocus()
: pappso::BasePlotWidget
- setFocusSignal()
: pappso::BasePlotWidget
- setGraphData()
: pappso::BaseTracePlotWidget
- setGreatestMz()
: pappso::MzIntegrationParams
- setGroupNumber()
: pappso::GrpGroup
, pappso::GrpPeptide
, pappso::GrpPeptideSet
, pappso::GrpProtein
, pappso::GrpSubGroup
- setGrpPeptide()
: pappso::GrpExperiment
- setInputParameters()
: pappso::WrapTandemResults
- setInternalCterModification()
: pappso::Peptide
- setInternalNterModification()
: pappso::Peptide
- setIonList()
: pappso::MassSpectrumWidget
- setIonScore()
: pappso::XtandemSpectrumProcess
- setLeftBoundary()
: pappso::TracePeak
- setMassSpectrumCstSPtr()
: pappso::MassSpectrumWidget
- setMassSpectrumId()
: pappso::QualifiedMassSpectrum
- setMassSpectrumSPtr()
: pappso::QualifiedMassSpectrum
- setMaximumIsotopeNumber()
: pappso::MassSpectrumWidget
- setMaximumIsotopeRank()
: pappso::MassSpectrumWidget
- setMaxNumberMod()
: pappso::PeptideVariableModificationBuilder
- setMaxPeptideVariantListSize()
: pappso::Enzyme
- setMaxXicElement()
: pappso::TracePeak
- setMinimumMz()
: pappso::XtandemSpectrumProcess
- setMinNumberMod()
: pappso::PeptideVariableModificationBuilder
- setMiscleavage()
: pappso::Enzyme
- setModificationCounter()
: pappso::PeptideVariableModificationBuilder
- setModificationPattern()
: pappso::PeptideModificatorBase
- setMonoThread()
: pappso::MsRunReader
, pappso::TimsData
- setMs1FilterCstSPtr()
: pappso::TimsData
, pappso::TimsMsRunReaderMs2
, pappso::TimsMsRunReaderMs2Selected
- setMs1MeanFilter()
: pappso::MsRunRetentionTime< T >
- setMs1Precision()
: pappso::MassSpectrumWidget
- setMs2BuiltinCentroid()
: pappso::TimsData
, pappso::TimsMsRunReaderMs2
- setMs2FilterCstSPtr()
: pappso::TimsData
, pappso::TimsMsRunReaderMs2
, pappso::TimsMsRunReaderMs2Selected
- setMs2MeanFilter()
: pappso::MsRunRetentionTime< T >
- setMs2MedianFilter()
: pappso::MsRunRetentionTime< T >
- setMs2Precision()
: pappso::MassSpectrumWidget
- setMsLevel()
: pappso::MassSpectrumWidget
, pappso::QualifiedMassSpectrum
- setMsMsType()
: pappso::TimsFrameBase
- setMsRunId()
: pappso::MassSpectrumId
- setMsRunXicExtractorFactoryType()
: pappso::MsRunXicExtractorFactory
- setMzCalibration()
: pappso::TimsFrameBase
- setMzCalibrationInterfaceSPtr()
: pappso::TimsFrameBase
- setMzFormat()
: pappso::MsRunId
- setMzRangeChanged()
: pappso::QCPSpectrum
- setMzShift()
: pappso::MzIntegrationParams
- setMzTarget()
: pappso::OboChooserWidget
- setName()
: pappso::QCPXic
, pappso::XicWidget
- setNativeId()
: pappso::MassSpectrumId
- setNeedMsLevelPeakList()
: pappso::SpectrumCollectionHandlerInterface
- setNeutralLossMass()
: pappso::XtandemSpectrumProcess
- setNeutralLossWindowDalton()
: pappso::XtandemSpectrumProcess
- setNmostIntense()
: pappso::XtandemSpectrumProcess
- setNodesToProcessCount()
: pappso::MsRunDataSetTreeNodeVisitorInterface
- setOboPsiModTerm()
: pappso::FilterOboPsiModSink
, pappso::FilterOboPsiModTermAccession
, pappso::FilterOboPsiModTermDiffMono
, pappso::FilterOboPsiModTermLabel
, pappso::FilterOboPsiModTermName
, pappso::OboListModel::OboPsiModHandler
, pappso::OboPsiModHandlerInterface
- setOrigAndLastMaxZValue()
: pappso::ColorMapPlotConfig
- setOrigAndLastMinZValue()
: pappso::ColorMapPlotConfig
- setOrigMaxZValue()
: pappso::ColorMapPlotConfig
- setOrigMinZValue()
: pappso::ColorMapPlotConfig
- setParameterValue()
: pappso::QualifiedMassSpectrum
- setParent()
: pappso::MsRunDataSetTreeNode
- setPen()
: pappso::BasePlotWidget
- setPeptide()
: pappso::EnzymeProductInterface
, pappso::PeptideBuilder
, pappso::PeptideMethioninRemove
, pappso::PeptideModificatorPipeline
, pappso::PeptideSemiEnzyme
, pappso::PeptideSizeFilter
- setPeptideCharge()
: pappso::MassSpectrumWidget
- setPeptideSp()
: pappso::MassSpectrumWidget
, pappso::PeptideFixedModificationBuilder
, pappso::PeptideModificatorInterface
, pappso::PeptideModificatorPipeline
, pappso::PeptideModificatorTee
, pappso::PeptideVariableModificationBuilder
, pappso::PeptideVariableModificationReplacement
- setPeptideSpectrumCharge()
: pappso::PsmFeatures
- setPlottingColor()
: pappso::BaseColorMapPlotWidget
, pappso::BasePlotWidget
- setPoint()
: pappso::SelectionPolygon
- setPostExtractionTraceFilterCstSPtr()
: pappso::MsRunXicExtractorInterface
- setPpmValueChanged()
: pappso::PrecisionWidget
- setPrecision()
: pappso::MzIntegrationParams
, pappso::OboChooserWidget
, pappso::PrecisionWidget
- setPrecursorNativeId()
: pappso::QualifiedMassSpectrum
- setPrecursorSpectrumIndex()
: pappso::QualifiedMassSpectrum
- setPreferedFileReaderType()
: pappso::MsFileAccessor
- setProtCter()
: pappso::PeptideFixedModificationBuilder
, pappso::PeptideVariableModificationBuilder
- setProtElse()
: pappso::PeptideFixedModificationBuilder
, pappso::PeptideVariableModificationBuilder
- setProtNter()
: pappso::PeptideFixedModificationBuilder
, pappso::PeptideVariableModificationBuilder
- setQualifiedMassSpectrum()
: pappso::MassSpectrumWidget
, pappso::MsRunDataSetTreeNode
, pappso::MsRunReaderRetentionTimeLine
, pappso::MsRunReaderScanNumberMultiMap
, pappso::MsRunReaderTicChromatogram
, pappso::MsRunSimpleStatistics
, pappso::MsRunXicExtractor::MsRunXicExtractorReadPoints
, pappso::MzxmlOutput::Translater
, pappso::SpectrumCollectionHandlerInterface
- setRank()
: pappso::GrpPeptide
, pappso::GrpProtein
- setReadAhead()
: pappso::MzxmlOutput
, pappso::SpectrumCollectionHandlerInterface
- setRefineSpectrumModel()
: pappso::XtandemSpectrumProcess
- setRemoveIsotope()
: pappso::XtandemSpectrumProcess
- setRemoveNonInformativeSubgroups()
: pappso::GrpExperiment
- setRemoveZeroValDataPoints()
: pappso::MzIntegrationParams
- setResValueChanged()
: pappso::PrecisionWidget
- setRetentionTimeAroundTarget()
: pappso::MsRunXicExtractorInterface
- setRetentionTimeInMinutes()
: pappso::XicWidget
- setRetentionTimeInSeconds()
: pappso::XicWidget
- setRightBoundary()
: pappso::TracePeak
- setRtInSeconds()
: pappso::QualifiedMassSpectrum
- setRtRangeChanged()
: pappso::QCPXic
- setRunId()
: pappso::MsRunId
- setSampleName()
: pappso::MsRunId
- setSequence()
: pappso::FastaHandlerInterface
, pappso::Protein
- setSink()
: pappso::PeptideBuilder
, pappso::PeptideFixedModificationBuilder
, pappso::PeptideMethioninRemove
, pappso::PeptideModificatorPipeline
, pappso::PeptideSemiEnzyme
, pappso::PeptideSinkInterface
, pappso::PeptideSizeFilter
, pappso::PeptideSpSinkInterface
, pappso::PeptideVariableModificationBuilder
- setSize()
: pappso::MsRunSlice
- setSliceNumber()
: pappso::MsRunSlice
- setSmallestMz()
: pappso::MzIntegrationParams
- setSpectrum()
: pappso::MsRunSlice
- setSpectrumIndex()
: pappso::MassSpectrumId
- setSpectrumP()
: pappso::QCPSpectrum
- setStatus()
: pappso::UiMonitorInterface
, pappso::UiMonitorText
, pappso::UiMonitorVoid
- setSubGroupNumber()
: pappso::GrpProtein
, pappso::GrpSubGroup
- setSwitchValue()
: pappso::SwitchWidget
- setTakeOnlyFirstWildcard()
: pappso::Enzyme
- setTandemBinaryPath()
: pappso::TandemWrapperRun
- setText()
: pappso::HttpButton
- setTicStart()
: pappso::TraceDetectionMoulon
- setTicStop()
: pappso::TraceDetectionMoulon
- setTime()
: pappso::TimsFrameBase
- setTimsCalibration()
: pappso::TimsFrameBase
- setTitle()
: pappso::UiMonitorInterface
, pappso::UiMonitorText
, pappso::UiMonitorVoid
- setTmpDir()
: pappso::MsRunXicExtractorFactory
- setTotalSteps()
: pappso::UiMonitorInterface
, pappso::UiMonitorText
, pappso::UiMonitorTextPercent
, pappso::UiMonitorVoid
- setTracePeak()
: pappso::TraceDetectionSinkInterface
, pappso::TracePeakList
- setTriangleSlope()
: pappso::FilterTriangle
- setupWidget()
: pappso::BasePlotWidget
- setVisibleMassDelta()
: pappso::MassSpectrumWidget
- setXicExtractMethod()
: pappso::MsRunXicExtractorInterface
- setXmlId()
: pappso::MsRunId
- setXrefOrigin()
: pappso::AaModification
- sgcoeff()
: pappso::FilterSavitzkyGolay
- shouldIstop()
: pappso::UiMonitorInterface
, pappso::UiMonitorText
, pappso::UiMonitorVoid
- shouldStop()
: pappso::MsRunDataSetTreeNodeVisitorInterface
, pappso::SpectrumCollectionHandlerInterface
- showTracers()
: pappso::BasePlotWidget
- size()
: pappso::FilterOboPsiModSink
, pappso::GrpMapPeptideToSubGroupSet
, pappso::GrpPeptideSet
, pappso::GrpSubGroupSet
, pappso::MsRunDataSetTree
, pappso::MsRunDataSetTreeNode
, pappso::MsRunSlice
, pappso::Peptide
, pappso::PeptideFragment
, pappso::PeptideFragmentIon
, pappso::PeptideFragmentIonListBase
, pappso::PeptideInterface
, pappso::PeptideIsotopeSpectrumMatch
, pappso::PeptideNaturalIsotope
, pappso::PeptideNaturalIsotopeList
, pappso::PeptideSpectrumMatch
, pappso::Protein
, pappso::QualifiedMassSpectrum
- sizetListDataFormatRegExp
: pappso::Utils
- sortByRetentionTime()
: pappso::Xic
- sortMz()
: pappso::MassSpectrum
- sortX()
: pappso::Trace
- sortY()
: pappso::Trace
- spaceKeyReleaseEvent()
: pappso::BasePlotWidget
- spectrum_index
: pappso::MsRunXicExtractor::MsRunXicExtractorPoints
- spectrumListHasSize()
: pappso::SpectrumCollectionHandlerInterface
- spectrumListSize()
: pappso::MsRunReader
, pappso::PwizMsRunReader
, pappso::TimsFramesMsRunReader
, pappso::TimsMsRunReader
, pappso::TimsMsRunReaderMs2
, pappso::TimsMsRunReaderMs2Selected
, pappso::XyMsRunReader
- splitMzStringToDoubleVectorWithSpaces()
: pappso::Utils
- splitSizetStringToSizetVectorWithSpaces()
: pappso::Utils
- startGrouping()
: pappso::GrpExperiment
, pappso::GrpGroupingMonitor
, pappso::GrpGroupingMonitorInterface
- startLinearRead()
: pappso::TimsBinDec
- startNumberingAllGroups()
: pappso::GrpGroupingMonitor
, pappso::GrpGroupingMonitorInterface
- startRemovingNonInformativeSubGroupsInAllGroups()
: pappso::GrpGroupingMonitor
, pappso::GrpGroupingMonitorInterface
- stopGrouping()
: pappso::GrpGroupingMonitor
, pappso::GrpGroupingMonitorInterface
- stopRemovingNonInformativeSubGroupsInAllGroups()
: pappso::GrpGroupingMonitor
, pappso::GrpGroupingMonitorInterface
- storeSlices()
: pappso::MsRunXicExtractorDisk
, pappso::MsRunXicExtractorDiskBuffer
- strip()
: pappso::GrpProtein
- sumAndRemove()
: pappso::FilterTriangle
- sumY()
: pappso::Trace
- SwitchWidget()
: pappso::SwitchWidget