- o -

• O18Labeler() : O18Labeler
• OfflinePrecursorIonSelection() : OfflinePrecursorIonSelection
• ok() : BSpline2d , FuzzyStringComparator::InputLine
• ok_() : ToolsDialog , TOPPASToolConfigDialog
• OMSSACSVFile() : OMSSACSVFile
• OMSSAXMLFile() : OMSSAXMLFile
• OnDiscMSExperiment() : OnDiscMSExperiment
• one_minus_sum_post() : PosteriorErrorProbabilityModel
• op_changed_() : DataFilterDialog
• open() : Bzip2Ifstream , GzipIfstream
• openAsNewWindow() : TOPPViewOpenDialog
• openContainingFolder() : TOPPASInputFileListVertex , TOPPASOutputFileListVertex , TOPPASToolVertex
• openExampleDialog() : TOPPASBase , TOPPViewBase
• openFile() : IndexedMzMLFile , INIFileEditorWindow , OnDiscMSExperiment
• openFileDialog() : IDEvaluationBase , TOPPASBase , TOPPViewBase
• openFilesInTOPPView() : TOPPASBase
• openFolder() : GUIHelpers
• openglwidget() : Spectrum3DCanvas
• openInputFileStream_() : FuzzyStringComparator
• openInTOPPView() : TOPPASScene , TOPPASToolVertex
• OpenMSLineEdit() : OpenMSLineEdit
• OpenMSOSInfo() : OpenMSOSInfo
• openOnlinePipelineRepository() : TOPPASBase
• openPreferences() : SpectrumWidget
• openRecentFile() : TOPPViewBase
• OpenSwath_Scores() : OpenSwath_Scores
• OpenSwath_Scores_Usage() : OpenSwath_Scores_Usage
• OpenSwathOSWWriter() : OpenSwathOSWWriter
• OpenSwathScoring() : OpenSwathScoring
• OpenSwathTSVWriter() : OpenSwathTSVWriter
• OpenSwathWorkflow() : OpenSwathWorkflow
• OpenSwathWorkflowSonar() : OpenSwathWorkflowSonar
• openToppasFile() : TOPPASBase
• openURL() : GUIHelpers
• operator double() : DataValue , SparseVector< Value >::ValueProxy
• operator DoubleList() : DataValue
• operator float() : DataValue , SparseVector< Value >::ValueProxy
• operator int() : DataValue , SparseVector< Value >::ValueProxy
• operator IntList() : DataValue
• operator long double() : DataValue
• operator long int() : DataValue
• operator long long() : DataValue
• operator short int() : DataValue
• operator std::string() : DataValue
• operator StringList() : DataValue
• operator unsigned int() : DataValue
• operator unsigned long int() : DataValue
• operator unsigned long long() : DataValue
• operator unsigned short int() : DataValue
• operator!=() : AASequence::ConstIterator , AASequence::Iterator , AASequence , Acquisition , AcquisitionInfo , BaseFeature , BinnedSpectrum , ChargePair , ChromatogramPeak , ChromatogramSettings , ClusterProxyKD , ConsensusMap , ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT > , ConstRefVector< ContainerT > , ContactPerson , CVMappingRule , CVMappings , CVMappingTerm , CVReference , CVTerm , CVTerm::Unit , CVTermList , CVTermListInterface , DataFilters::DataFilter , DataProcessing , DocumentIDTagger , DPosition< D, TCoordinateType > , Element , EmpiricalFormula , Enzyme , ExperimentalSettings , FeatureHandle , FeatureMap , Gradient , HashGrid< Cluster >::ConstIterator , HashGrid< Cluster >::Iterator , HPLC , Identification , IdentificationHit , IMSElement , IMSIsotopeDistribution , IncludeExcludeTarget , Instrument , InstrumentSettings , AreaIterator< ValueT, ReferenceT, PointerT, SpectrumIteratorT, PeakIteratorT > , DIntervalBase< D > , IntensityIteratorWrapper< IteratorT > , IonDetector , IonSource , IsotopeDistribution , MassAnalyzer , Histogram< ValueType, BinSizeType > , MetaInfo , MetaInfoInterface , ModelDescription< D > , ModificationDefinition , ModificationDefinitionsSet , MSChromatogram , MSExperiment , MSQuantifications , MSSpectrum , OnDiscMSExperiment , Param::ParamIterator , Peak1D , Peak2D , PeakIndex , PeakShape , PeptideEvidence , PeptideHit , PeptideIdentification , Precursor , Product , ProteinHit , ProteinIdentification , ProteinIdentification::SearchParameters , RangeManager< D > , ReactionMonitoringTransition , Residue , ResidueModification , RichPeak2D , ScanWindow , Software , SourceFile , SparseVector< Value >::SparseVectorConstIterator , SparseVector< Value >::SparseVectorConstReverseIterator , SparseVector< Value >::SparseVectorIterator , SparseVector< Value >::SparseVectorReverseIterator , SparseVector< Value >::ValueProxy , SpectrumIdentification , SpectrumSettings , StopWatch , TargetedExperiment , Interpretation , VersionInfo::VersionDetails
• operator()() : _Bracket_accessor< _Val > , _Node_compare< _Val, _Acc, _Cmp > , always_true< _Tp > , squared_difference< _Tp, _Dist > , squared_difference_counted< _Tp, _Dist > , AccurateMassSearchEngine::CompareEntryAndMass_ , AverageLinkage , BaseFeature::QualityLess , BinaryComposeFunctionAdapter< OP1, OP2, OP3 > , BinnedSharedPeakCount , BinnedSpectralContrastAngle , BinnedSpectrumCompareFunctor , BinnedSumAgreeingIntensities , ChromatogramPeak::IntensityLess , ChromatogramPeak::PositionLess , ChromatogramPeak::RTLess , ClusterFunctor , CmpHypothesesByScore , CmpMassTraceByMZ , CompleteLinkage , ConsensusFeature::MapsLess , ConsensusFeature::SizeLess , DiaPrescore , DistanceMatrix< Value > , EGHFitter1D::EGHFitterFunctor , EGHTraceFitter::EGHTraceFunctor , EmgFitter1D::EgmFitterFunctor , EqualInTolerance< CompareType > , EuclideanSimilarity , FeatureDistance , FeatureHandle::IndexLess , GaussTraceFitter::GaussTraceFunctor , HasActivationMethod< SpectrumType > , HasMetaValue< MetaContainer > , HasPrecursorCharge< SpectrumType > , HasScanMode< SpectrumType > , HasScanPolarity< SpectrumType > , IDFilter::DigestionFilter , IDFilter::HasDecoyAnnotation< HitType > , IDFilter::HasGoodScore< HitType > , IDFilter::HasMatchingAccession< HitType > , IDFilter::HasMaxMetaValue< HitType > , IDFilter::HasMaxRank< HitType > , IDFilter::HasMetaValue< HitType > , IDFilter::HasNoHits< IdentificationType > , IMSAlphabet::MassSortingCriteria_ , InclusionExclusionList::WindowDistance_ , InIntensityRange< PeakType > , InMSLevelRange< SpectrumType > , InMzRange< PeakType > , InPrecursorMZRange< SpectrumType > , InRTRange< SpectrumType > , IntensityLess< FeaFiModuleType > , IsEmptySpectrum< SpectrumType > , IsInCollisionEnergyRange< SpectrumType > , IsInIsolationWindow< SpectrumType > , IsInIsolationWindowSizeRange< SpectrumType > , IsZoomSpectrum< SpectrumType > , LCMS::OPERATOR_FeatureCompare , LCMS::OPERATOR_MZ , LevMarqFitter1D::GenericFunctor , LexicographicComparator< Cmp1, Cmp2 > , ListUtils::DoubleTolerancePredicate_ , MapAlignmentAlgorithmSpectrumAlignment::Compare , ROCCurve::simsortdec , Matrix< Value > , MS1FeatureMerger::OPERATOR_FEATURE_TR , MSChromatogram::MZLess , MSSpectrum::RTLess , MultiplexClustering::MultiplexDistance , MZTrafoModel::RTLess , OptimizePick::OptPeakFunctor , OPXLDataStructs::AASeqWithMassComparator , OPXLDataStructs::XLPrecursorComparator , PairComparatorFirstElement< PairType > , PairComparatorFirstElementMore< PairType > , PairComparatorSecondElement< PairType > , PairComparatorSecondElementMore< PairType > , PairMatcherFirstElement< PairType > , PairMatcherSecondElement< PairType > , Peak1D::IntensityLess , Peak1D::MZLess , Peak1D::PositionLess , Peak2D::IntensityLess , Peak2D::MZLess , Peak2D::PositionLess , Peak2D::RTLess , PeakAlignment , PeakShape , PeakShape::PositionLess , PeakSpectrumCompareFunctor , PeptideHit::RankLess , PeptideHit::ScoreLess , PeptideHit::ScoreMore , PeptideHit::SequenceLessComparator , PercolatorFeatureSetHelper::lq_PeptideEvidence , PercolatorFeatureSetHelper::lq_ProteinHit , PointerComparator< Cmp > , PrecursorIonSelection::SeqTotalScoreMore , PrecursorIonSelection::TotalScoreMore , PrecursorMassComparator , ProteinHit::ScoreLess , ProteinHit::ScoreMore , PSLPFormulation::IndexLess , PSLPFormulation::ScanLess , PSLPFormulation::VariableIndexLess , ReactionMonitoringTransition::ProductMZLess , ReverseComparator< Cmp > , SingleLinkage , SpectralMatchScoreComparator , SpectraMerger::SpectraDistance_ , SpectraSTSimilarityScore , SpectrumAlignmentScore , SpectrumCheapDPCorr , SpectrumPrecursorComparator , SteinScottImproveScore , TraceFitter::GenericFunctor , TwoDOptimization::TwoDOptFunctor , UnaryComposeFunctionAdapter< OP1, OP2 > , ZhangSimilarityScore , mean_and_stddev , mySqrt , OSSpectrumMeta::RTLess , RIALess , SequenceLess , SizeLess
• operator*() : _Iterator< _Val, _Ref, _Ptr > , AASequence::ConstIterator , AASequence::Iterator , Adduct , ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT > , ConstRefVector< ContainerT >::ConstRefVectorIterator< ValueT > , DPosition< D, TCoordinateType > , EmpiricalFormula , FastaIterator , FastaIteratorIntern , HashGrid< Cluster >::ConstIterator , HashGrid< Cluster >::Iterator , AreaIterator< ValueT, ReferenceT, PointerT, SpectrumIteratorT, PeakIteratorT > , IntensityIterator< FeaFiModuleType > , IntensityIteratorWrapper< IteratorT > , MzIterator< FeaFiModuleType > , RtIterator< FeaFiModuleType > , IsotopeDistribution , Param::ParamIterator , PepIterator , SparseVector< Value >::SparseVectorConstIterator , SparseVector< Value >::SparseVectorConstReverseIterator , SparseVector< Value >::SparseVectorIterator , SparseVector< Value >::SparseVectorReverseIterator , TrypticIterator
• operator*=() : DPosition< D, TCoordinateType > , IMSIsotopeDistribution , IsotopeDistribution
• operator+() : AASequence::ConstIterator , AASequence::Iterator , AASequence , Adduct , ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT > , ConstRefVector< ContainerT >::ConstRefVectorIterator< ValueT > , DPosition< D, TCoordinateType > , EmpiricalFormula , FeatureMap , IsotopeDistribution , MassDecomposition , SparseVector< Value >::SparseVectorConstIterator , SparseVector< Value >::SparseVectorIterator , SparseVector< Value >::SparseVectorReverseIterator , String , TargetedExperiment
• operator++() : _Iterator< _Val, _Ref, _Ptr > , AASequence::ConstIterator , AASequence::Iterator , ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT > , ConstRefVector< ContainerT >::ConstRefVectorIterator< ValueT > , FastaIterator , FastaIteratorIntern , HashGrid< Cluster >::ConstIterator , HashGrid< Cluster >::Iterator , AreaIterator< ValueT, ReferenceT, PointerT, SpectrumIteratorT, PeakIteratorT > , IntensityIteratorWrapper< IteratorT > , Param::ParamIterator , PepIterator , SparseVector< Value >::SparseVectorConstIterator , SparseVector< Value >::SparseVectorConstReverseIterator , SparseVector< Value >::SparseVectorIterator , SparseVector< Value >::SparseVectorReverseIterator , TrypticIterator
• operator+=() : AASequence , Adduct , AnnotationStatistics , ConsensusMap , ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT > , ConstRefVector< ContainerT >::ConstRefVectorIterator< ValueT > , DPosition< D, TCoordinateType > , EmpiricalFormula , FeatureMap , IsotopeDistribution , MassDecomposition , SparseVector< Value >::SparseVectorConstIterator , SparseVector< Value >::SparseVectorIterator , SparseVector< Value >::SparseVectorReverseIterator , String , TargetedExperiment
• operator-() : AASequence::ConstIterator , AASequence::Iterator , ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT > , ConstRefVector< ContainerT >::ConstRefVectorIterator< ValueT > , DPosition< D, TCoordinateType > , EmpiricalFormula , IntensityIteratorWrapper< IteratorT > , SparseVector< Value >::SparseVectorConstIterator , SparseVector< Value >::SparseVectorIterator , SparseVector< Value >::SparseVectorReverseIterator
• operator--() : _Iterator< _Val, _Ref, _Ptr > , AASequence::ConstIterator , AASequence::Iterator , ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT > , ConstRefVector< ContainerT >::ConstRefVectorIterator< ValueT > , SparseVector< Value >::SparseVectorConstIterator , SparseVector< Value >::SparseVectorConstReverseIterator , SparseVector< Value >::SparseVectorIterator , SparseVector< Value >::SparseVectorReverseIterator
• operator-=() : ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT > , ConstRefVector< ContainerT >::ConstRefVectorIterator< ValueT > , DPosition< D, TCoordinateType > , EmpiricalFormula , SparseVector< Value >::SparseVectorConstIterator , SparseVector< Value >::SparseVectorIterator , SparseVector< Value >::SparseVectorReverseIterator
• operator->() : _Iterator< _Val, _Ref, _Ptr > , AASequence::ConstIterator , AASequence::Iterator , ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT > , ConstRefVector< ContainerT >::ConstRefVectorIterator< ValueT > , HashGrid< Cluster >::ConstIterator , HashGrid< Cluster >::Iterator , AreaIterator< ValueT, ReferenceT, PointerT, SpectrumIteratorT, PeakIteratorT > , LogStream , Param::ParamIterator
• operator/=() : DPosition< D, TCoordinateType >
• operator<() : FragmentAnnotationDetail_ , AASequence , BackgroundControl , CentroidPeak , ClusteredMS2ConsensusSpectrum , ClusterProxyKD , ConsensusIsotopePattern , ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT > , ConstRefVector< ContainerT > , DPosition< D, TCoordinateType > , EnzymaticDigestionLogModel::BindingSite_ , Enzyme , FeatureFinderAlgorithmPickedHelperStructs::Seed , FeatureLCProfile , FTPeakDetectController , GridBasedCluster , ToolDescriptionInternal , LCElutionPeak , MassDecomposition , Matrix< Value > , MinimumDistance , ModificationDefinition , MS2ConsensusSpectrum , MS2Feature , MS2Fragment , MS2Info , MSPeak , OPXLDataStructs::CrossLinkSpectrumMatch , PeptideEvidence , PeptideHit::PeakAnnotation , ProcessData , ProteinIdentification::ProteinGroup , QcMLFile::Attachment , QcMLFile::QualityParameter , QTCluster , SparseVector< Value > , SparseVector< Value >::SparseVectorConstIterator , SparseVector< Value >::SparseVectorIterator , SparseVector< Value >::SparseVectorReverseIterator , SparseVector< Value >::ValueProxy , StopWatch , StringView , SvmTheoreticalSpectrumGenerator::IonType , TOPPASToolVertex::IOInfo , VersionInfo::VersionDetails , RNPxlSearch::FragmentAdductDefinition_
• operator<<() : DBoundingBox< D > , DistanceMatrix< Value > , Matrix< Value > , SVOutStream , TextFile
• operator<=() : BackgroundControl , ClusteredMS2ConsensusSpectrum , ConsensusIsotopePattern , ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT > , ConstRefVector< ContainerT > , DPosition< D, TCoordinateType > , FeatureLCProfile , FTPeakDetectController , LCElutionPeak , MS2ConsensusSpectrum , MS2Feature , MS2Fragment , MS2Info , MSPeak , ProcessData , SparseVector< Value >::SparseVectorConstIterator , SparseVector< Value >::SparseVectorIterator , SparseVector< Value >::SparseVectorReverseIterator , SparseVector< Value >::ValueProxy , StopWatch
• operator=() : KDTree< __K, _Val, _Acc, _Dist, _Cmp, _Alloc > , AASequence::ConstIterator , AASequence::Iterator , AASequence , AccurateMassSearchResult , Acquisition , AcquisitionInfo , Annotations1DContainer , AnnotationStatistics , AverageLinkage , BackgroundIntensityBin , BaseFeature , BaseGroupFinder , BaseModel< D > , BaseSuperimposer , BernNorm , BiGaussFitter1D , BiGaussModel , BinaryTreeNode , BinnedSharedPeakCount , BinnedSpectralContrastAngle , BinnedSpectrum , BinnedSpectrumCompareFunctor , BinnedSumAgreeingIntensities , Bzip2Ifstream , Bzip2InputStream , CachedmzML , CentroidPeak , ChargePair , ChromatogramPeak , ChromatogramSettings , ClusterAnalyzer , ClusterFunctor , ClusterProxyKD , ComplementFilter , ComplementMarker , CompleteLinkage , CompNovoIdentification , CompNovoIdentificationBase , CompNovoIdentificationBase::Permut , CompNovoIdentificationCID , CompNovoIonScoring , CompNovoIonScoringBase::IonScore , CompNovoIonScoringBase , CompNovoIonScoringCID , Compomer , CompressedInputSource , ConsensusFeature , ConsensusFeature::Ratio , ConsensusIDAlgorithm , ConsensusIDAlgorithmAverage , ConsensusIDAlgorithmBest , ConsensusIDAlgorithmIdentity , ConsensusIDAlgorithmPEPIons , ConsensusIDAlgorithmPEPMatrix , ConsensusIDAlgorithmRanks , ConsensusIDAlgorithmSimilarity , ConsensusIDAlgorithmWorst , ConsensusIsotopePattern , ConsensusMap , ConsensusMapNormalizerAlgorithmMedian , ConsensusMapNormalizerAlgorithmQuantile , ConsensusMapNormalizerAlgorithmThreshold , ConsoleUtils , ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT > , ConstRefVector< ContainerT > , ContactPerson , ControlledVocabulary::CVTerm , ConvexHull2D , CrossLinksDB , CVMappingFile , CVMappingRule , CVMappings , CVMappingTerm , CVReference , CVTerm , CVTerm::Unit , CVTermList , CVTermListInterface , DataProcessing , DataValue , Date , DateTime , DBoundingBox< D > , DeconvPeak , DefaultParamHandler , DeNovoAlgorithm , DeNovoIdentification , DeNovoIonScoring::IonScore , DeNovoIonScoring , DeNovoPostScoring , DetectabilitySimulation , DIAScoring , Digestion , DigestSimulation , DistanceMatrix< Value > , DocumentIdentifier , DocumentIDTagger , DPosition< D, TCoordinateType > , DRange< D > , EGHFitter1D , EGHModel , EGHTraceFitter , Element , ElementDB , EmgFitter1D , EmgModel , EmpiricalFormula , EnzymaticDigestion , EnzymaticDigestionLogModel , Enzyme , EnzymesDB , EuclideanSimilarity , ExperimentalSettings , ExtendedIsotopeFitter1D , ExtendedIsotopeModel , FalseDiscoveryRate , FASTAFile::FASTAEntry , FastaIterator , FeaFiModule< PeakType > , Feature , FeatureDeconvolution , FeatureDistance , FeatureFinderAlgorithm , FeatureFinderAlgorithmPicked , FeatureGroupingAlgorithm , FeatureGroupingAlgorithmKD , FeatureGroupingAlgorithmLabeled , FeatureGroupingAlgorithmQT , FeatureGroupingAlgorithmUnlabeled , FeatureHandle , FeatureHypothesis , FeatureLCProfile , FeatureMap , FilterFunctor , Fitter1D , FTPeakDetectController , FuzzyStringComparator , GaussFitter1D , GaussModel , GaussTraceFitter , GoodDiffFilter , Gradient , GzipIfstream , GzipInputStream , HiddenMarkovModel , HMMState , HPLC , IBSpectraFile , IDDecoyProbability , IDDecoyProbability::Transformation_ , Identification , IdentificationHit , IDMapper , IDRipper , IMSElement , IMSIsotopeDistribution , Weights , IncludeExcludeTarget , InspectInfile , InspectOutfile , Instrument , InstrumentSettings , IntensityBalanceFilter , AreaIterator< ValueT, ReferenceT, PointerT, SpectrumIteratorT, PeakIteratorT > , DIntervalBase< D > , FileMapping , MappingParam , MzDataValidator , MzIdentMLDOMHandler , MzIdentMLHandler , MzIdentMLValidator , MzMLValidator , MzQuantMLHandler , MzQuantMLValidator , SemanticValidator , ToolDescription , ToolDescriptionHandler , ToolDescriptionInternal , TraMLHandler , TraMLValidator , InterpolationModel , IonDetector , IonizationSimulation , IonSource , IsobaricChannelExtractor , IsobaricNormalizer , IsobaricQuantifier , IsobaricQuantifierStatistics , IsotopeDiffFilter , IsotopeDistribution , IsotopeFitter1D , IsotopeMarker , IsotopeModel , ItraqEightPlexQuantitationMethod , ItraqFourPlexQuantitationMethod , KDTreeFeatureNode , LabeledPairFinder , LCElutionPeak , LCMS , LCMSCData , LevMarqFitter1D , LocalLinearMap , LogConfigHandler , MapAlignmentAlgorithmIdentification , MapAlignmentAlgorithmPoseClustering , MapAlignmentAlgorithmSpectrumAlignment , MapAlignmentEvaluationAlgorithm , MapAlignmentEvaluationAlgorithmPrecision , MapAlignmentEvaluationAlgorithmRecall , MarkerMower , MascotRemoteQuery , MassAnalyzer , MassDecomposition , MassDecompositionAlgorithm , MassExplainer , MassTrace , BasicStatistics< RealT > , BilinearInterpolation< Key, Value > , GammaDistributionFitter , GaussFitter , GumbelDistributionFitter , Histogram< ValueType, BinSizeType > , LinearInterpolation< Key, Value > , LinearRegression , PosteriorErrorProbabilityModel , ROCCurve , Matrix< Value > , MaxLikeliFitter1D , MetaboliteFeatureDeconvolution , MetaInfo , MetaInfoDescription , MetaInfoInterface , MetaInfoInterfaceUtils , MetaInfoRegistry , ModelDescription< D > , Modification , ModificationDefinition , ModificationDefinitionsSet , ModificationsDB , MRMFeature , MRMFragmentSelection , MRMTransitionGroup< ChromatogramType, TransitionType > , MRMTransitionGroupPicker , MS2ConsensusSpectrum , MS2Fragment , MS2Info , MSChromatogram , MSExperiment , MSPeak , MSPFile , MSQuantifications::AnalysisSummary , MSQuantifications::Assay , MSQuantifications , MSSpectrum , MultiGradient , NetworkGetRequest , NeutralLossDiffFilter , NeutralLossMarker , NLargest , Normalizer , OMSSAXMLFile , OnDiscMSExperiment , PenaltyFactors , PenaltyFactorsIntensity , OptimizePeakDeconvolution , Param , ParameterInformation , ParentPeakMower , Peak1D , Peak2D , PeakAlignment , PeakIntensityPredictor , PeakMarker , PeakPickerMRM , PeakShape , PeakSpectrumCompareFunctor , PepNovoInfile , PepNovoOutfile , PeptideEvidence , PeptideHit , PeptideHit::PepXMLAnalysisResult , PeptideIdentification , PepXMLFile::AminoAcidModification , Precursor , PrecursorIonSelectionPreprocessing , ProcessData , Product , ProductModel< 2 > , ProgressLogger , ProteinHit , ProteinIdentification , ProteinInference , ProteinResolver , ProtonDistributionModel , QcMLFile::Attachment , QcMLFile::QualityParameter , QuantitativeExperimentalDesign , RangeManager< D > , RawMSSignalSimulation , RawTandemMSSignalSimulation , ReactionMonitoringTransition , Residue , ResidueDB , ResidueModification , RichPeak2D , RTSimulation , Sample , SampleTreatment , Scaler , ScanWindow , SequestInfile , SequestOutfile , SHFeature , SignalToNoiseEstimator< Container > , SignalToNoiseEstimatorMeanIterative< Container > , SignalToNoiseEstimatorMedian< Container > , SingleLinkage , Software , SONARScoring , SourceFile , SparseVector< Value > , SparseVector< Value >::SparseVectorConstIterator , SparseVector< Value >::SparseVectorConstReverseIterator , SparseVector< Value >::SparseVectorIterator , SparseVector< Value >::SparseVectorReverseIterator , SparseVector< Value >::ValueProxy , SpectralMatch , SpectraMerger , SpectraSTSimilarityScore , SpectrumAlignment , SpectrumAlignmentScore , SpectrumAnnotator , SpectrumCheapDPCorr , SpectrumIdentification , SpectrumLookup , SpectrumMetaDataLookup , SpectrumPrecursorComparator , SpectrumSettings , SqrtMower , SteinScottImproveScore , StopWatch , StreamHandler , StringListUtils , SuperHirnParameters , SvmTheoreticalSpectrumGenerator::IonType , SvmTheoreticalSpectrumGenerator , SvmTheoreticalSpectrumGeneratorSet , SvmTheoreticalSpectrumGeneratorTrainer , Tagging , TargetedExperiment , Compound , Configuration , Contact , Instrument , Interpretation , Peptide , Prediction , Protein , Publication , RetentionTime , TraMLProduct , TheoreticalSpectrumGenerator , TheoreticalSpectrumGeneratorXLMS , ThresholdMower , TICFilter , TMTElevenPlexQuantitationMethod , TMTSixPlexQuantitationMethod , TMTTenPlexQuantitationMethod , TOPPASEdge , TOPPASInputFileListVertex , TOPPASMergerVertex , TOPPASOutputFileListVertex , TOPPASResource , TOPPASResources , TOPPASSplitterVertex , TOPPASToolVertex::IOInfo , TOPPASToolVertex , TOPPASVertex , TraceFitter , TransformationDescription , TransformationModel , TwoDOptimization , UnimodXMLFile , UniqueIdInterface , WindowMower , XTandemInfile , XTandemXMLFile , ZhangSimilarityScore
• operator==() : FragmentAnnotationDetail_ , AASequence::ConstIterator , AASequence::Iterator , AASequence , Acquisition , AcquisitionInfo , AnnotationStatistics , BackgroundControl , BaseFeature , BinnedSpectrum , ChargePair , ChromatogramPeak , ChromatogramSettings , ClusteredMS2ConsensusSpectrum , ClusterProxyKD , ConsensusIsotopePattern , ConsensusMap , ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT > , ConstRefVector< ContainerT > , ContactPerson , ConvexHull2D , CVMappingRule , CVMappings , CVMappingTerm , CVReference , CVTerm , CVTerm::Unit , CVTermList , CVTermListInterface , DataFilters::DataFilter , DataProcessing , DBoundingBox< D > , DefaultParamHandler , Digestion , DistanceMatrix< Value > , DocumentIdentifier , DocumentIDTagger , DPosition< D, TCoordinateType > , DRange< D > , Element , EmpiricalFormula , EnzymaticDigestionLogModel::BindingSite_ , Enzyme , ExperimentalSettings , FASTAFile::FASTAEntry , Feature , FeatureHandle , FeatureLCProfile , FeatureMap , Gradient , GridBasedCluster , HashGrid< Cluster >::ConstIterator , HashGrid< Cluster >::Iterator , HPLC , Identification , IdentificationHit , IMSElement , IMSIsotopeDistribution , IMSIsotopeDistribution::Peak , IncludeExcludeTarget , InspectInfile , InspectOutfile , Instrument , InstrumentSettings , AreaIterator< ValueT, ReferenceT, PointerT, SpectrumIteratorT, PeakIteratorT > , DIntervalBase< D > , IntensityIteratorWrapper< IteratorT > , ToolDescriptionInternal , IonDetector , IonSource , IsotopeDistribution , MassAnalyzer , MassDecomposition , Histogram< ValueType, BinSizeType > , Matrix< Value > , MetaInfo , MetaInfoDescription , MetaInfoInterface , MinimumDistance , ModelDescription< D > , Modification , ModificationDefinition , ModificationDefinitionsSet , MS2ConsensusSpectrum , MS2Feature , MS2Fragment , MS2Info , MSChromatogram , MSExperiment , MSQuantifications , MSSpectrum , OnDiscMSExperiment , OPXLDataStructs::CrossLinkSpectrumMatch , OPXLDataStructs::ProteinProteinCrossLink , Param , Param::ParamEntry , Param::ParamIterator , Param::ParamNode , Peak1D , Peak2D , PeakIndex , PeakShape , PepNovoInfile , PepNovoOutfile , PeptideEvidence , PeptideHit , PeptideHit::PeakAnnotation , PeptideHit::PepXMLAnalysisResult , PeptideIdentification , Precursor , Product , ProteinHit , ProteinIdentification , ProteinIdentification::ProteinGroup , ProteinIdentification::SearchParameters , QcMLFile::Attachment , QcMLFile::QualityParameter , RangeManager< D > , ReactionMonitoringTransition , Residue , ResidueModification , RichPeak2D , Sample , SampleTreatment , ScanWindow , SequestInfile , SequestOutfile , SHFeature , Software , SourceFile , SparseVector< Value > , SparseVector< Value >::SparseVectorConstIterator , SparseVector< Value >::SparseVectorIterator , SparseVector< Value >::SparseVectorReverseIterator , SparseVector< Value >::ValueProxy , SpectrumIdentification , SpectrumSettings , StopWatch , SVMData , Tagging , TargetedExperiment , Compound , Contact , CV , Instrument , Interpretation , Peptide , Prediction , Protein , Publication , RetentionTime , TraMLProduct , UniqueIdInterface , VersionInfo::VersionDetails , RNPxlSearch::FragmentAdductDefinition_
• operator>() : BackgroundControl , ClusteredMS2ConsensusSpectrum , ConsensusIsotopePattern , ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT > , ConstRefVector< ContainerT > , DPosition< D, TCoordinateType > , FeatureLCProfile , FTPeakDetectController , GridBasedCluster , LCElutionPeak , MinimumDistance , MS2ConsensusSpectrum , MS2Feature , MS2Fragment , MS2Info , MSPeak , ProcessData , QcMLFile::Attachment , QcMLFile::QualityParameter , SparseVector< Value >::SparseVectorConstIterator , SparseVector< Value >::SparseVectorIterator , SparseVector< Value >::SparseVectorReverseIterator , SparseVector< Value >::ValueProxy , StopWatch , VersionInfo::VersionDetails
• operator>=() : BackgroundControl , ClusteredMS2ConsensusSpectrum , ConsensusIsotopePattern , ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT > , ConstRefVector< ContainerT > , DPosition< D, TCoordinateType > , FeatureLCProfile , FTPeakDetectController , LCElutionPeak , MS2ConsensusSpectrum , MS2Feature , MS2Fragment , MS2Info , MSPeak , ProcessData , SparseVector< Value >::SparseVectorConstIterator , SparseVector< Value >::SparseVectorIterator , SparseVector< Value >::SparseVectorReverseIterator , SparseVector< Value >::ValueProxy , StopWatch
• operator[]() : AASequence , ConstRefVector< ContainerT > , ContinuousWaveletTransform , DataFilters , DPosition< D, TCoordinateType > , Weights , IntensityIteratorWrapper< IteratorT > , KDTreeFeatureNode , Map< Key, T > , MassTrace , Histogram< ValueType, BinSizeType > , MSExperiment , OnDiscMSExperiment , SparseVector< Value > , SparseVector< Value >::SparseVectorConstIterator , SparseVector< Value >::SparseVectorIterator , SparseVector< Value >::SparseVectorReverseIterator , TOPPASVertex::TOPPASFilenames
• optimise() : KDTree< __K, _Val, _Acc, _Dist, _Cmp, _Alloc >
• optimize() : KDTree< __K, _Val, _Acc, _Dist, _Cmp, _Alloc > , OptimizePeakDeconvolution , OptimizePick , TwoDOptimization
• optimize_() : LevMarqFitter1D , TraceFitter
• optimizeAnnotations_() : QTCluster
• optimizeParameters_() : SimpleSVM
• OptimizePeakDeconvolution() : OptimizePeakDeconvolution
• OptimizePick() : OptimizePick
• optimizeRegions_() : TwoDOptimization
• optimizeRegionsScanwise_() : TwoDOptimization
• optimizeTree() : KDTreeFeatureMaps
• optionalAttributeAsDouble_() : XMLHandler
• optionalAttributeAsDoubleList_() : XMLHandler
• optionalAttributeAsInt_() : XMLHandler
• optionalAttributeAsIntList_() : XMLHandler
• optionalAttributeAsString_() : XMLHandler
• optionalAttributeAsStringList_() : XMLHandler
• optionalAttributeAsUInt_() : XMLHandler
• OptPeakFunctor() : OptimizePick::OptPeakFunctor
• order_by_mass() : LCMS
• orderBest_() : PeptideAndProteinQuant
• OSChromatogram() : OSChromatogram
• OSChromatogramMeta() : OSChromatogramMeta
• OSSpectrum() : OSSpectrum
• OSSpectrumMeta() : OSSpectrumMeta
• outEdgeHasChanged() : TOPPASInputFileListVertex , TOPPASToolVertex , TOPPASVertex
• outEdgesBegin() : TOPPASVertex
• outEdgesEnd() : TOPPASVertex
• outgoingEdgesCount() : TOPPASVertex
• OutOfGrid() : OutOfGrid
• OutOfMemory() : OutOfMemory
• OutOfRange() : OutOfRange
• outputFileWritable_() : TOPPBase
• outputFileWritten() : TOPPASOutputFileListVertex
• outputFolderNameChanged() : TOPPASOutputFileListVertex
• outputVertexFinished() : TOPPASBase
• outsideExtractionWindow_() : ChromatogramExtractor
• overflow() : LogStreamBuf