Here is a list of all class members with links to the classes they belong to:
- o -
- O
: ExtendedIsotopeModel
, IsotopeModel
, LmaIsotopeModel
, LmaIsotopeFitter1D
- O18Labeler()
: O18Labeler
- OBO
: FileTypes
- observed_intensity_
: AccurateMassSearchResult
- observed_rt_
: AccurateMassSearchResult
- ObservedIntensMap
: SvmTheoreticalSpectrumGeneratorTrainer
- obsolete
: ControlledVocabulary::CVTerm
- OFF
: MassAnalyzer
- official_
: TOPPBase
- OfflinePrecursorIonSelection()
: OfflinePrecursorIonSelection
- offset_
: LinearInterpolation< Key, Value >
- offset_0_
: BilinearInterpolation< Key, Value >
- offset_1_
: BilinearInterpolation< Key, Value >
- offset_max_
: TransformationModelBSpline
- offset_min_
: TransformationModelBSpline
- ok()
: FuzzyStringComparator::InputLine
, DBOpenDialog
- ok_()
: ToolsDialog
, TOPPASToolConfigDialog
- ok_button_
: ToolsDialog
- OkButton_
: ListEditor
- OLIGO
: SVMWrapper
- OLIGO_COMBINED
: SVMWrapper
- OLINKED_GLYCOSYLATION
: ResidueModification
- OMSSACSVFile()
: OMSSACSVFile
- OMSSAXML
: FileTypes
- OMSSAXMLFile()
: OMSSAXMLFile
- ON
: MassAnalyzer
- one_letter_code_
: Residue
- one_minus_sum_post()
: PosteriorErrorProbabilityModel
- op
: DataFilters::DataFilter
- op1_
: BinaryComposeFunctionAdapter< OP1, OP2, OP3 >
, UnaryComposeFunctionAdapter< OP1, OP2 >
- op2_
: BinaryComposeFunctionAdapter< OP1, OP2, OP3 >
, UnaryComposeFunctionAdapter< OP1, OP2 >
- op3_
: BinaryComposeFunctionAdapter< OP1, OP2, OP3 >
- op_changed_()
: DataFilterDialog
- open()
: SuffixArray
, SuffixArraySeqan
, SuffixArrayTrypticCompressed
, Bzip2Ifstream
, GzipIfstream
- open_boxes_
: IsotopeWaveletTransform< PeakType >
- open_tag_
: PTMXMLHandler
- open_tags_
: XMLHandler
, SemanticValidator
- openAsNewWindow()
: TOPPViewOpenDialog
- openContainingFolder()
: TOPPASInputFileListVertex
, TOPPASOutputFileListVertex
, TOPPASToolVertex
- openDatabaseDialog()
: TOPPViewBase
- opened
: Param::ParamIterator::TraceInfo
- openExampleDialog()
: TOPPASBase
, TOPPViewBase
- openFile()
: INIFileEditorWindow
- openFileDialog()
: IDEvaluationBase
, TOPPASBase
, TOPPViewBase
- openFilesInTOPPView()
: TOPPASBase
- openglcanvas_
: Spectrum3DCanvas
- openglwidget()
: Spectrum3DCanvas
- openInputFileStream_()
: FuzzyStringComparator
- openInTOPPView()
: TOPPASScene
, TOPPASToolVertex
- OpenMSLineEdit()
: OpenMSLineEdit
- OpenMSOSInfo()
: OpenMSOSInfo
- OpenMSXMLFormatTarget()
: OpenMSXMLFormatTarget
- openOnlinePipelineRepository()
: TOPPASBase
- openPreferences()
: SpectrumWidget
- openRecentFile()
: TOPPViewBase
- OPENSPLIT
: IonSource
- openToppasFile()
: TOPPASBase
- 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 PointCoordinate()
: HierarchicalClustering< PointRef >::BoundingBox
- 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!=()
: Param::ParamIterator
, SparseVector< Value >::ValueProxy
, SparseVector< Value >::SparseVectorIterator
, SparseVector< Value >::SparseVectorReverseIterator
, SparseVector< Value >::SparseVectorConstIterator
, SparseVector< Value >::SparseVectorConstReverseIterator
, IntensityIteratorWrapper< IteratorT >
, DataFilters::DataFilter
, AreaIterator< ValueT, ReferenceT, PointerT, SpectrumIteratorT, PeakIteratorT >
, BaseFeature
, ChromatogramPeak
, ConsensusMap
, FeatureHandle
, FeatureMap< FeatureT >
, MSChromatogram< PeakT >
, MSExperiment< PeakT, ChromatogramPeakT >
, MSSpectrum< PeakT >
, Peak1D
, Peak2D
, PeakIndex
, RangeManager< D >
, RichPeak1D
, RichPeak2D
, Histogram< ValueType, BinSizeType >
, Acquisition
, AcquisitionInfo
, ChromatogramSettings
, ContactPerson
, CVTerm::Unit
, CVTerm
, CVTermList
, DataProcessing
, DocumentIDTagger
, ExperimentalSettings
, Gradient
, HPLC
, Identification
, IdentificationHit
, Instrument
, InstrumentSettings
, IonDetector
, IonSource
, MassAnalyzer
, MetaInfo
, MetaInfoInterface
, MSQuantifications
, PeptideEvidence
, PeptideHit
, PeptideIdentification
, Precursor
, Product
, ProteinHit
, ProteinIdentification::SearchParameters
, ProteinIdentification
, ScanWindow
, Software
, SourceFile
, SpectrumIdentification
, SpectrumSettings
, StopWatch
, ModelDescription< D >
, PeakShape
, FoundProteinFunctor
, ReactionMonitoringTransition
, IncludeExcludeTarget
, AASequence::ConstIterator
, AASequence::Iterator
, AASequence
, Element
, EmpiricalFormula
, IsotopeDistribution
, IMSElement
, IMSIsotopeDistribution
, ModificationDefinition
, ModificationDefinitionsSet
, Residue
, ResidueModification
, HashGrid< Cluster >::Iterator
, HashGrid< Cluster >::ConstIterator
, BinnedSpectrum
, ChargePair
, ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT >
, ConstRefVector< ContainerT >
, CVMappingRule
, CVMappings
, CVMappingTerm
, CVReference
, DataValue
, DIntervalBase< D >
, DPosition< D, TCoordinateType >
- operator()()
: ChromatogramPeak::IntensityLess
, ChromatogramPeak::RTLess
, ChromatogramPeak::PositionLess
, PointerComparator< Cmp >
, ReverseComparator< Cmp >
, LexicographicComparator< Cmp1, Cmp2 >
, PairComparatorFirstElement< PairType >
, PairComparatorSecondElement< PairType >
, PairComparatorFirstElementMore< PairType >
, PairComparatorSecondElementMore< PairType >
, PairMatcherFirstElement< PairType >
, PairMatcherSecondElement< PairType >
, EqualInTolerance< CompareType >
, ConsensusFeature::SizeLess
, ConsensusFeature::MapsLess
, FeatureHandle::IndexLess
, MSChromatogram< PeakT >::MZLess
, MSSpectrum< PeakT >::RTLess
, Peak1D::IntensityLess
, Peak1D::MZLess
, Peak1D::PositionLess
, Peak2D::IntensityLess
, Peak2D::RTLess
, Peak2D::MZLess
, Peak2D::PositionLess
, HasMetaValue< MetaContainer >
, InRTRange< SpectrumType >
, InMSLevelRange< SpectrumType >
, HasScanMode< SpectrumType >
, IsEmptySpectrum< SpectrumType >
, IsZoomSpectrum< SpectrumType >
, HasActivationMethod< SpectrumType >
, InPrecursorMZRange< SpectrumType >
, HasPrecursorCharge< SpectrumType >
, InMzRange< PeakType >
, InIntensityRange< PeakType >
, IsInCollisionEnergyRange< SpectrumType >
, IsInIsolationWindowSizeRange< SpectrumType >
, ROCCurve::simsortdec
, PeptideHit::ScoreMore
, PeptideHit::ScoreLess
, ProteinHit::ScoreMore
, ProteinHit::ScoreLess
, IntensityLess< FeaFiModuleType >
, IsotopeWaveletParallelFor< PeakType, FeatureType >
, PeakWidthEstimator::Result
, SimpleExtender< PeakType, FeatureType >::IndexWithPriority::PriorityLess
, LCMS::OPERATOR_MZ
, LCMS::OPERATOR_FeatureCompare
, MS1FeatureMerger::OPERATOR_FEATURE_TR
, PeakShape
, PeakShape::PositionLess
, FoundProteinFunctor
, FeatureDistance
, MapAlignmentAlgorithmSpectrumAlignment::Compare
, ReactionMonitoringTransition::ProductMZLess
, DiaPrescore
, mySqrt
, mean_and_stddev
, InclusionExclusionList::WindowDistance_
, PrecursorIonSelection::TotalScoreMore
, PrecursorIonSelection::SeqTotalScoreMore
, PSLPFormulation::IndexLess
, PSLPFormulation::ScanLess
, PSLPFormulation::VariableIndexLess
, IMSAlphabet::MassSortingCriteria_
, AverageLinkage
, ClusterFunctor
, CompleteLinkage
, EuclideanSimilarity
, SingleLinkage
, BinnedSharedPeakCount
, BinnedSpectralContrastAngle
, BinnedSpectrumCompareFunctor
, BinnedSumAgreeingIntensities
, CompareFouriertransform
, PeakAlignment
, PeakSpectrumCompareFunctor
, SpectraSTSimilarityScore
, SpectrumAlignmentScore
, SpectrumCheapDPCorr
, SpectrumPrecursorComparator
, SteinScottImproveScore
, ZhangSimilarityScore
, BinaryComposeFunctionAdapter< OP1, OP2, OP3 >
, UnaryComposeFunctionAdapter< OP1, OP2 >
, DistanceMatrix< Value >
, Matrix< Value >
, CmpMassTraceByMZ
, CmpHypothesesByScore
, SILACFiltering::SpectrumInterpolation
, SpectraMerger::SpectraDistance_
, BaseFeature::QualityLess
, ChromatogramPeak::IntensityLess
- operator*()
: AASequence::ConstIterator
, AASequence::Iterator
, EdwardsLippertIterator
, EmpiricalFormula
, IsotopeDistribution
, PepIterator
, TrypticIterator
, HashGrid< Cluster >::Iterator
, HashGrid< Cluster >::ConstIterator
, Adduct
, ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT >
, ConstRefVector< ContainerT >::ConstRefVectorIterator< ValueT >
, DPosition< D, TCoordinateType >
, Param::ParamIterator
, SparseVector< Value >::SparseVectorIterator
, SparseVector< Value >::SparseVectorReverseIterator
, SparseVector< Value >::SparseVectorConstIterator
, SparseVector< Value >::SparseVectorConstReverseIterator
, IntensityIteratorWrapper< IteratorT >
, FastaIterator
, FastaIteratorIntern
, AreaIterator< ValueT, ReferenceT, PointerT, SpectrumIteratorT, PeakIteratorT >
, IntensityIterator< FeaFiModuleType >
, MzIterator< FeaFiModuleType >
, RtIterator< FeaFiModuleType >
- operator*=()
: IsotopeDistribution
, IMSIsotopeDistribution
, DPosition< D, TCoordinateType >
- operator+()
: TargetedExperiment
, AASequence::ConstIterator
, AASequence::Iterator
, AASequence
, EmpiricalFormula
, IsotopeDistribution
, MassDecomposition
, Adduct
, ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT >
, ConstRefVector< ContainerT >::ConstRefVectorIterator< ValueT >
, DPosition< D, TCoordinateType >
, SparseVector< Value >::SparseVectorIterator
, SparseVector< Value >::SparseVectorReverseIterator
, SparseVector< Value >::SparseVectorConstIterator
, String
, FeatureMap< FeatureT >
- operator++()
: AASequence::ConstIterator
, AASequence::Iterator
, EdwardsLippertIterator
, PepIterator
, TrypticIterator
, HashGrid< Cluster >::Iterator
, HashGrid< Cluster >::ConstIterator
, ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT >
, ConstRefVector< ContainerT >::ConstRefVectorIterator< ValueT >
, Param::ParamIterator
, SparseVector< Value >::SparseVectorIterator
, SparseVector< Value >::SparseVectorReverseIterator
, SparseVector< Value >::SparseVectorConstIterator
, SparseVector< Value >::SparseVectorConstReverseIterator
, IntensityIteratorWrapper< IteratorT >
, FastaIterator
, FastaIteratorIntern
, AreaIterator< ValueT, ReferenceT, PointerT, SpectrumIteratorT, PeakIteratorT >
- operator+=()
: TargetedExperiment
, AASequence
, EmpiricalFormula
, IsotopeDistribution
, MassDecomposition
, Adduct
, ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT >
, ConstRefVector< ContainerT >::ConstRefVectorIterator< ValueT >
, DPosition< D, TCoordinateType >
, SparseVector< Value >::SparseVectorIterator
, SparseVector< Value >::SparseVectorReverseIterator
, SparseVector< Value >::SparseVectorConstIterator
, String
, ConsensusMap
, AnnotationStatistics
, FeatureMap< FeatureT >
- operator-()
: AASequence::ConstIterator
, AASequence::Iterator
, EmpiricalFormula
, ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT >
, ConstRefVector< ContainerT >::ConstRefVectorIterator< ValueT >
, DPosition< D, TCoordinateType >
, SparseVector< Value >::SparseVectorIterator
, SparseVector< Value >::SparseVectorReverseIterator
, SparseVector< Value >::SparseVectorConstIterator
, IntensityIteratorWrapper< IteratorT >
- operator--()
: AASequence::ConstIterator
, AASequence::Iterator
, ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT >
, ConstRefVector< ContainerT >::ConstRefVectorIterator< ValueT >
, SparseVector< Value >::SparseVectorIterator
, SparseVector< Value >::SparseVectorReverseIterator
, SparseVector< Value >::SparseVectorConstIterator
, SparseVector< Value >::SparseVectorConstReverseIterator
- operator-=()
: EmpiricalFormula
, ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT >
, ConstRefVector< ContainerT >::ConstRefVectorIterator< ValueT >
, DPosition< D, TCoordinateType >
, SparseVector< Value >::SparseVectorIterator
, SparseVector< Value >::SparseVectorReverseIterator
, SparseVector< Value >::SparseVectorConstIterator
- operator->()
: AASequence::ConstIterator
, AASequence::Iterator
, HashGrid< Cluster >::Iterator
, HashGrid< Cluster >::ConstIterator
, LogStream
, ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT >
, ConstRefVector< ContainerT >::ConstRefVectorIterator< ValueT >
, Param::ParamIterator
, AreaIterator< ValueT, ReferenceT, PointerT, SpectrumIteratorT, PeakIteratorT >
- operator/=()
: DPosition< D, TCoordinateType >
- operator<()
: PILISCrossValidation::Peptide
, AASequence
, EnzymaticDigestion::BindingSite
, MassDecomposition
, ModificationDefinition
, SvmTheoreticalSpectrumGenerator::IonType
, VersionInfo::VersionDetails
, Compomer
, ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT >
, ConstRefVector< ContainerT >
, DataValue
, DPosition< D, TCoordinateType >
, Matrix< Value >
, QTCluster
, SparseVector< Value >
, SparseVector< Value >::ValueProxy
, SparseVector< Value >::SparseVectorIterator
, SparseVector< Value >::SparseVectorReverseIterator
, SparseVector< Value >::SparseVectorConstIterator
, ToolDescriptionInternal
, QcMLFile::QualityParameter
, QcMLFile::Attachment
, StopWatch
, FeatureFinderAlgorithmPickedHelperStructs::Seed
, BackgroundControl
, CentroidPeak
, ClusteredMS2ConsensusSpectrum
, ConsensusIsotopePattern
, FeatureLCProfile
, FTPeakDetectController
, LCElutionPeak
, MS2ConsensusSpectrum
, MS2Feature
, MS2Fragment
, MS2Info
, MSPeak
, ProcessData
, TOPPASToolVertex::IOInfo
- operator<<
: AASequence
, Element
, EmpiricalFormula
, Residue
, LogConfigHandler
, StreamHandler
, Adduct
, Compomer
, DataValue
, DoubleList
, IntList
, StringList
, ControlledVocabulary
, SVOutStream
, Peak2D
, BasicStatistics< RealT >
, RawData
, DBoundingBox< D >
, DistanceMatrix< Value >
, Matrix< Value >
- operator<=()
: ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT >
, ConstRefVector< ContainerT >
, DPosition< D, TCoordinateType >
, SparseVector< Value >::ValueProxy
, SparseVector< Value >::SparseVectorIterator
, SparseVector< Value >::SparseVectorReverseIterator
, SparseVector< Value >::SparseVectorConstIterator
, StopWatch
, BackgroundControl
, ClusteredMS2ConsensusSpectrum
, ConsensusIsotopePattern
, FeatureLCProfile
, FTPeakDetectController
, LCElutionPeak
, MS2ConsensusSpectrum
, MS2Feature
, MS2Fragment
, MS2Info
, MSPeak
, ProcessData
- operator=()
: ConvexHull2D
, NeutralLossDiffFilter
, InspectOutfile
, ChargePair
, BinaryTreeNode
, TOPPASVertex
, LmaGaussFitter1D
, LogConfigHandler
, FastaIterator
, MzQuantMLHandler
, MzIdentMLHandler
, SpectrumPrecursorComparator
, CVMappingFile
, CompressedInputSource
, NLargest
, SpectraSTSimilarityScore
, Scaler
, PeakMarker
, IntList
, BinnedSumAgreeingIntensities
, BinnedSpectrumCompareFunctor
, FilterFunctor
, IsotopeMarker
, BinnedSpectralContrastAngle
, ToolDescription
, SingleLinkage
, SignalToNoiseEstimatorMedian< Container >
, CompleteLinkage
, SparseVector< Value >::SparseVectorConstIterator
, StringList
, MassExplainer
, TheoreticalSpectrumGenerator
, SparseVector< Value >::ValueProxy
, SparseVector< Value >
, DataValue
, SvmTheoreticalSpectrumGenerator::IonType
, ResidueModification
, DoubleList
, DRange< D >
, ModificationsDB
, Date
, ModificationDefinition
, DefaultParamHandler
, MassDecomposition
, DBoundingBox< D >
, DataValue
, CVReference
, FeatureDeconvolution
, ElementDB
, Element
, CompNovoIdentification
, CompNovoIdentificationBase
, AASequence::Iterator
, CompNovoIdentificationBase::Permut
, ParameterInformation
, CompNovoIdentificationCID
, TraMLProduct
, CompNovoIonScoring
, CompNovoIonScoringBase::IonScore
, CompNovoIonScoringBase
, Contact
, CompNovoIonScoringCID
, DeNovoAlgorithm
, DeNovoIdentification
, Protein
, DeNovoIonScoring::IonScore
, DeNovoIonScoring
, DeNovoPostScoring
, IncludeExcludeTarget
, AccurateMassSearchResult
, ConsensusID
, FalseDiscoveryRate
, ProteinInference
, HMMState
, HiddenMarkovModel
, IDDecoyProbability
, IDDecoyProbability::Transformation_
, IDMapper
, IDRipper
, PILISCrossValidation::Peptide
, IsobaricIsotopeCorrector
, PILISCrossValidation::Option
, PILISCrossValidation
, PILISIdentification
, MRMTransitionGroupPicker
, PILISModel
, PILISModelGenerator
, LmaGaussModel
, MRMFragmentSelection
, PILISNeutralLossModel
, PILISScoring
, ProtonDistributionModel
, BaseGroupFinder
, BaseSuperimposer
, ConsensusMapNormalizerAlgorithmMedian
, ConsensusMapNormalizerAlgorithmQuantile
, MapAlignmentAlgorithm
, ConsensusMapNormalizerAlgorithmThreshold
, FeatureDistance
, FeatureGroupingAlgorithm
, FeatureGroupingAlgorithmIdentification
, FeatureGroupingAlgorithmLabeled
, FeatureGroupingAlgorithmQT
, FeatureGroupingAlgorithmUnlabeled
, LabeledPairFinder
, MapAlignmentAlgorithmIdentification
, MapAlignmentAlgorithmPoseClustering
, MapAlignmentAlgorithmSpectrumAlignment
, MapAlignmentEvaluationAlgorithm
, MapAlignmentEvaluationAlgorithmPrecision
, MapAlignmentEvaluationAlgorithmRecall
, TransformationDescription
, ReactionMonitoringTransition
, CachedmzML
, DIAScoring
, LocalLinearMap
, PeakIntensityPredictor
, IsobaricChannelExtractor
, TOPPASInputFileListVertex
, IsobaricNormalizer
, IsobaricQuantifier
, IsobaricQuantifierStatistics
, ItraqChannelExtractor
, ItraqEightPlexQuantitationMethod
, ItraqFourPlexQuantitationMethod
, ItraqQuantifier
, ProteinResolver
, QuantitativeExperimentalDesign
, TMTSixPlexQuantitationMethod
, PrecursorIonSelectionPreprocessing
, TargetedExperiment
, Configuration
, TOPPASToolVertex
, RetentionTime
, Compound
, Peptide
, Publication
, Instrument
, Prediction
, TOPPASOutputFileListVertex
, TOPPASToolVertex::IOInfo
, ConsoleUtils
, AASequence::ConstIterator
, AASequence
, EdwardsLippertIteratorTryptic
, TOPPASResources
, MS2ConsensusSpectrum
, MultiGradient
, EmpiricalFormula
, EnzymaticDigestion
, IsotopeDistribution
, IMSElement
, IMSIsotopeDistribution
, Weights
, PenaltyFactors
, Annotations1DContainer
, MassDecompositionAlgorithm
, ModificationDefinitionsSet
, Residue
, ResidueDB
, TwoDOptimization
, SuperHirnParameters
, SvmTheoreticalSpectrumGenerator
, SvmTheoreticalSpectrumGeneratorSet
, SvmTheoreticalSpectrumGeneratorTrainer
, AverageLinkage
, ClusterAnalyzer
, ClusterFunctor
, MS2Info
, SHFeature
, EuclideanSimilarity
, BinnedSharedPeakCount
, BinnedSpectrum
, ProcessData
, LmaIsotopeModel
, LCMS
, CompareFouriertransform
, PeakAlignment
, PeakSpectrumCompareFunctor
, SpectrumAlignment
, SpectrumAlignmentScore
, SpectrumCheapDPCorr
, ConsensusIsotopePattern
, SteinScottImproveScore
, ZhangSimilarityScore
, FuzzyStringComparator
, StreamHandler
, UniqueIdInterface
, FTPeakDetectController
, SimpleSeeder< PeakType, FeatureType >
, Compomer
, ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT >
, ConstRefVector< ContainerT >
, CVMappingRule
, CVMappings
, CVMappingTerm
, ModelDescription< D >
, SimpleExtender< PeakType, FeatureType >
, DataValue
, ProductModel< 2 >
, HPLC
, FeaFiModule< PeakType, FeatureType >
, DataValue
, IsotopeFitter1D
, DataValue
, DateTime
, DBoundingBox< D >
, LevMarqFitter1D
, GaussFitter1D
, DIntervalBase< D >
, DistanceMatrix< Value >
, DoubleList
, DPosition< D, TCoordinateType >
, DRange< D >
, FeatureFinderAlgorithmPicked< PeakType, FeatureType >
, Fitter1D
, IntList
, Matrix< Value >
, Param
, FeatureFinderAlgorithmSimplest< PeakType, FeatureType >
, EGHFitter1D
, ExtendedIsotopeFitter1D
, SparseVector< Value >::ValueProxy
, SparseVector< Value >::SparseVectorIterator
, SparseVector< Value >::SparseVectorReverseIterator
, SparseVector< Value >::SparseVectorConstReverseIterator
, StringList
, TOPPASMergerVertex
, TOPPASEdge
, StringList
, BiGaussModel
, OptimizePeakDeconvolution
, FileMapping
, MappingParam
, ToolDescriptionInternal
, MS2Fragment
, FeatureHypothesis
, LCElutionPeak
, SignalToNoiseEstimator< Container >
, DeconvPeak
, SignalToNoiseEstimatorMeanIterative< Container >
, SimRandomNumberGenerator
, BernNorm
, MaxLikeliFitter1D
, LmaIsotopeFitter1D
, ComplementFilter
, ComplementMarker
, InterpolationModel
, GoodDiffFilter
, IntensityBalanceFilter
, IsotopeDiffFilter
, FeatureFinderAlgorithm< PeakType, FeatureType >
, IonizationSimulation
, EmgModel
, EmgFitter1D
, RTSimulation
, MarkerMower
, NeutralLossMarker
, Normalizer
, EGHModel
, DigestSimulation
, ParentPeakMower
, RawTandemMSSignalSimulation
, Software
, PeptideIdentification
, DetectabilitySimulation
, SpectraMerger
, SqrtMower
, ThresholdMower
, MSQuantifications
, TICFilter
, MetaInfoRegistry
, WindowMower
, Bzip2Ifstream
, Bzip2InputStream
, Instrument
, Identification
, SourceFile
, Tagging
, Digestion
, ControlledVocabulary::CVTerm
, ExperimentalSettings
, ContactPerson
, Acquisition
, PosteriorErrorProbabilityModel
, Histogram< ValueType, BinSizeType >
, GumbelDistributionFitter
, PersistentObject
, GzipIfstream
, IonSource
, RichPeak2D
, RangeManager< D >
, Peak1D
, MSExperiment< PeakT, ChromatogramPeakT >
, MRMFeature
, GzipInputStream
, MSQuantifications::Assay
, Feature
, ConsensusFeature::Ratio
, ChromatogramPeak
, XTandemXMLFile
, XTandemInfile
, MzQuantMLValidator
, SpectrumSettings
, ProteinHit
, SequestOutfile
, QcMLFile::QualityParameter
, PepNovoOutfile
, Sample
, ToolDescriptionHandler
, TraMLHandler
, InspectInfile
, MascotRemoteQuery
, MSPFile
, OMSSAXMLFile
, Product
, ProteinIdentification
, SequestInfile
, IdentificationHit
, PeptideEvidence
, MzIdentMLValidator
, MzMLValidator
, TraMLValidator
, Modification
, BaseFeature
, ConsensusMap
, MetaInfo
, FeatureMap< FeatureT >
, MassTrace
, MSChromatogram< PeakT >
, InstrumentSettings
, MassAnalyzer
, RichPeak2D
, PepNovoInfile
, ROCCurve
, BasicStatistics< RealT >
, GammaDistributionFitter::GammaDistributionFitResult
, GammaDistributionFitter
, GaussFitter
, GumbelDistributionFitter::GumbelDistributionFitResult
, DocumentIdentifier
, Gradient
, ChromatogramSettings
, CVTerm
, CVTermList
, DataProcessing
, DocumentIDTagger
, AcquisitionInfo
, CVTerm::Unit
, IonDetector
, Peak2D
, LinearRegression
, MetaInfoDescription
, MetaInfoInterface
, MSQuantifications::AnalysisSummary
, PeptideHit
, Precursor
, ProteinHit
, LinearInterpolation< Key, Value >
, SampleTreatment
, ScanWindow
, SpectrumIdentification
, RichPeak1D
, BilinearInterpolation< Key, Value >
, RawMSSignalSimulation
, MSSpectrum< PeakT >
, StopWatch
, BaseModel< D >
, BiGaussFitter1D
, EGHTraceFitter< PeakType >
, MRMTransitionGroup< SpectrumType, TransitionType >
, ExtendedIsotopeModel
, FeatureFinderAlgorithmSimple< PeakType, FeatureType >
, AnnotationStatistics
, GaussModel
, GaussTraceFitter< PeakType >
, IsotopeModel
, ConsensusFeature
, FeatureHandle
, ModelFitter< PeakType, FeatureType >
, PepXMLFile::AminoAcidModification
, AreaIterator< ValueT, ReferenceT, PointerT, SpectrumIteratorT, PeakIteratorT >
, BackgroundIntensityBin
, CentroidPeak
, FeatureLCProfile
, SemanticValidator
, LCMSCData
, MSPeak
, MzDataValidator
, TraceFitter< PeakType >
, PenaltyFactorsIntensity
, PeakShape
, QcMLFile::Attachment
, UnimodXMLFile
, TOPPASResource
- operator==()
: ProteinIdentification::ProteinGroup
, MetaInfoDescription
, ReactionMonitoringTransition
, SVMData
, TargetedExperiment
, CV
, FeatureLCProfile
, Compound
, Peptide
, Instrument
, AASequence::Iterator
, AASequence
, FeatureHandle
, CVMappings
, IsotopeDistribution
, MS2Feature
, MS2Fragment
, Residue
, ResidueModification
, HashGrid< Cluster >::Iterator
, PeakIndex
, BinnedSpectrum
, Adduct
, RangeManager< D >
, ClusteredMS2ConsensusSpectrum
, BinnedSpectrum
, CVMappingTerm
, CVReference
, ContactPerson
, ModelDescription< D >
, DBoundingBox< D >
, Protein
, DRange< D >
, CVTermList
, StopWatch
, SparseVector< Value >
, ExperimentalSettings
, SparseVector< Value >::ValueProxy
, SparseVector< Value >::SparseVectorIterator
, MetaInfoInterface
, DefaultParamHandler
, SparseVector< Value >::SparseVectorConstIterator
, Param::ParamEntry
, FASTAFile::FASTAEntry
, IonSource
, IonDetector
, MS2ConsensusSpectrum
, PepNovoOutfile
, SpectrumSettings
, SourceFile
, ProteinIdentification::SearchParameters
, SequestOutfile
, PeptideHit
, PeptideEvidence
, InstrumentSettings
, PeptideIdentification
, DocumentIdentifier
, Product
, TraMLProduct
, RichPeak2D
, AreaIterator< ValueT, ReferenceT, PointerT, SpectrumIteratorT, PeakIteratorT >
, SampleTreatment
, ConsensusMap
, Param::ParamNode
, FeatureMap< FeatureT >
, Sample
, RetentionTime
, Prediction
, RichPeak1D
, CVTerm
, MSQuantifications
, HPLC
, MetaInfo
, ToolDescriptionInternal
, MSChromatogram< PeakT >
, Precursor
, ProteinHit
, DataProcessing
, ScanWindow
, BackgroundControl
, MassAnalyzer
, SHFeature
, IncludeExcludeTarget
, Digestion
, Identification
, Gradient
, DocumentIDTagger
, QcMLFile::QualityParameter
, MSExperiment< PeakT, ChromatogramPeakT >
, Acquisition
, Publication
, CVTerm::Unit
, ChromatogramSettings
, QcMLFile::Attachment
, DataFilters::DataFilter
, MSSpectrum< PeakT >
, IntensityIteratorWrapper< IteratorT >
, InspectInfile
, Peak1D
, Peak2D
, InspectOutfile
, ChromatogramPeak
, BaseFeature
, AnnotationStatistics
, PepNovoInfile
, Feature
, SequestInfile
, SparseVector< Value >::SparseVectorReverseIterator
, Software
, Instrument
, Param::ParamIterator
, IdentificationHit
, AASequence::ConstIterator
, FoundProteinFunctor
, PeakShape
, DIntervalBase< D >
, AASequence
, Modification
, AcquisitionInfo
, ProteinIdentification
, DRange< D >
, ChargePair
, CVMappingRule
, IMSElement
, EnzymaticDigestion::BindingSite
, MS2Info
, ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT >
, DPosition< D, TCoordinateType >
, Tagging
, DBoundingBox< D >
, Param
, ConsensusIsotopePattern
, IMSIsotopeDistribution
, ConstRefVector< ContainerT >
, SpectrumIdentification
, DistanceMatrix< Value >
, Element
, DataValue
, Matrix< Value >
, Contact
, ModificationDefinition
, ConvexHull2D
, UniqueIdInterface
, EmpiricalFormula
, IMSIsotopeDistribution::Peak
, EmpiricalFormula
, ModificationDefinitionsSet
, Residue
, VersionInfo::VersionDetails
, HashGrid< Cluster >::ConstIterator
, MassDecomposition
, Histogram< ValueType, BinSizeType >
, Compomer
- operator>()
: ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT >
, SparseVector< Value >::SparseVectorIterator
, SparseVector< Value >::SparseVectorConstIterator
, BackgroundControl
, HierarchicalClustering< PointRef >::TreeDistance
, DPosition< D, TCoordinateType >
, MS2Fragment
, VersionInfo::VersionDetails
, ProcessData
, MS2Info
, DataValue
, ConstRefVector< ContainerT >
, SparseVector< Value >::SparseVectorReverseIterator
, SparseVector< Value >::ValueProxy
, StopWatch
, FTPeakDetectController
, QcMLFile::Attachment
, MS2Feature
, QcMLFile::QualityParameter
, FeatureLCProfile
, ConsensusIsotopePattern
, LCElutionPeak
, ClusteredMS2ConsensusSpectrum
, MS2ConsensusSpectrum
, MSPeak
- operator>=()
: SparseVector< Value >::SparseVectorReverseIterator
, ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT >
, ProcessData
, MS2ConsensusSpectrum
, MS2Fragment
, FTPeakDetectController
, MSPeak
, BackgroundControl
, StopWatch
, LCElutionPeak
, MS2Feature
, SparseVector< Value >::SparseVectorConstIterator
, DPosition< D, TCoordinateType >
, ClusteredMS2ConsensusSpectrum
, ConsensusIsotopePattern
, FeatureLCProfile
, ConstRefVector< ContainerT >
, MS2Info
, SparseVector< Value >::ValueProxy
, SparseVector< Value >::SparseVectorIterator
- operator>>
: AASequence
- operator[]()
: SparseVector< Value >::SparseVectorReverseIterator
, SparseVector< Value >::SparseVectorIterator
, Histogram< ValueType, BinSizeType >
, MassTrace
, SparseVector< Value >::SparseVectorConstIterator
, MSExperiment< PeakT, ChromatogramPeakT >
, AASequence
, ContinuousWaveletTransform
, MassTrace
, Map< Key, T >
, ConstRefVector< ContainerT >
, IntensityIteratorWrapper< IteratorT >
, SparseVector< Value >
, DPosition< D, TCoordinateType >
, MSExperiment< PeakT, ChromatogramPeakT >
, DataFilters
, AASequence
, Weights
, ContinuousWaveletTransform
- operator|()
: HierarchicalClustering< PointRef >::BoundingBox
- operator|=()
: HierarchicalClustering< PointRef >::BoundingBox
- opt_
: MzTabSmallMoleculeSectionRow
, MzTabProteinSectionRow
, MzTabPeptideSectionRow
- OPTIMAL
: LPWrapper
- optimization_
: PeakPickerCWT
- optimize()
: OptimizePeakDeconvolution
, OptimizePick
, TwoDOptimization
- optimize_()
: LevMarqFitter1D
, TraceFitter< PeakType >
- optimizeAnnotations_()
: QTCluster
- OptimizePeakDeconvolution()
: OptimizePeakDeconvolution
- OptimizePick()
: OptimizePick
- optimizeRegions_()
: TwoDOptimization
- optimizeRegionsScanwise_()
: TwoDOptimization
- Option()
: PILISCrossValidation::Option
- optional_begin
: FeatureFinderAlgorithmPickedHelperStructs::TheoreticalIsotopePattern
- optional_end
: FeatureFinderAlgorithmPickedHelperStructs::TheoreticalIsotopePattern
- optional_fit_improvement_
: FeatureFinderAlgorithmPicked< PeakType, FeatureType >
- optionalAttributeAsDouble_()
: XMLHandler
- optionalAttributeAsDoubleList_()
: XMLHandler
- optionalAttributeAsInt_()
: XMLHandler
- optionalAttributeAsIntList_()
: XMLHandler
- optionalAttributeAsString_()
: XMLHandler
- optionalAttributeAsStringList_()
: XMLHandler
- optionalAttributeAsUInt_()
: XMLHandler
- options_
: MzMLHandler< MapType >
, MzDataFile
, MzXMLFile
, DTA2DFile
, DBAdapter
, MzDataHandler< MapType >
, FileHandler
, ConsensusXMLFile
, MzMLFile
, MzXMLHandler< MapType >
, FeatureXMLFile
- OR
: CVMappingRule
- ORBITRAP
: MassAnalyzer
- order_
: IonDetector
, SavitzkyGolayFilter
, MassAnalyzer
, MassAnalyzerVisualizer
, IonSource
, IonDetectorVisualizer
, IonSourceVisualizer
- order_by_mass()
: LCMS
- orderBest_()
: PeptideAndProteinQuant
- organism_
: Sample
- orgIntensity_
: CentroidPeak
- origin
: ProteinResolver::PeptideEntry
- origin_
: ResidueModification
- original_mz
: RNPxlReportRow
- os
: OpenMSOSInfo
- os_
: XMLValidator
- os_version
: OpenMSOSInfo
- OTHER
: ResidueModification
- OTHER_GLYCOSYLATION
: ResidueModification
- out
: SILACAnalyzer
, TOPPViewBase
- out_clusters
: SILACAnalyzer
- out_debug
: SILACAnalyzer
- out_dir_
: TOPPASScene
- out_edges_
: TOPPASVertex
- out_features
: SILACAnalyzer
- out_filters
: SILACAnalyzer
- out_mzq
: SILACAnalyzer
- outEdgeHasChanged()
: TOPPASToolVertex
, TOPPASVertex
, TOPPASInputFileListVertex
- outEdgesBegin()
: TOPPASVertex
- outEdgesEnd()
: TOPPASVertex
- outer_points_
: ConvexHull2D
- outgoingEdgesCount()
: TOPPASVertex
- outlier_candidate()
: MRMRTNormalizer
- OutlierAttribute
: MS2Fragment
- OutOfGrid()
: OutOfGrid
- OutOfMemory()
: OutOfMemory
- OutOfRange()
: OutOfRange
- output_combo_
: ToolsDialog
- output_delay
: LPWrapper::SolverParam
- OUTPUT_DIR
: FTPeakDetectController
- OUTPUT_FILE
: ListEditor
, ParameterInformation
- OUTPUT_FILE_LIST
: ParameterInformation
- output_filename_
: XTandemInfile
- output_files_
: TOPPASVertex
- output_freq
: LPWrapper::SolverParam
- output_lines_
: SequestInfile
- outputFileWritable_()
: TOPPBase
- outputFileWritten()
: TOPPASOutputFileListVertex
- outputResults()
: AccurateMassSearchResult
- outputVertexFinished()
: TOPPASBase
- outside_
: LinearInterpolation< Key, Value >
- outside_0_
: BilinearInterpolation< Key, Value >
- outside_1_
: BilinearInterpolation< Key, Value >
- outsideExtractionWindow_()
: ChromatogramExtractor
- outsideLCelutionSignals
: FeatureLCProfile
- overall_data_range_
: SpectrumCanvas
- overall_values_
: Spectrum3DOpenGLCanvas
- OverallQualityLess
: Feature
- overflow()
: LogStreamBuf
- own_model_
: PILISIdentification
- own_sequence_db_
: PILISIdentification