| OpenMS 2.5.0

### - i -

- IBSpectraFile() : IBSpectraFile
- ICPLLabeler() : ICPLLabeler
- IDBoostGraph() : IDBoostGraph
- IDDecoyProbability() : IDDecoyProbability
- Identification() : Identification
- IdentificationData() : IdentificationData
- IdentificationHit() : IdentificationHit
- IdentifiedCompound() : IdentifiedCompound
- IdentifiedSequence() : IdentifiedSequence< SeqType >
- identifyCharge() : IsotopeWaveletTransform< PeakType >
- IDFilter() : IDFilter
- IDMapper() : IDMapper
- IDMergerAlgorithm() : IDMergerAlgorithm
- IDRipper() : IDRipper
- IDScoresAsMetaValue() : MRMFeature
- IdXMLFile() : IdXMLFile
- IEWindow() : InclusionExclusionList::IEWindow
- IllegalArgument() : IllegalArgument
- IllegalKey() : Map< Key, T >::IllegalKey
- IllegalPosition() : IllegalPosition
- IllegalSelfOperation() : IllegalSelfOperation
- IllegalTreeOperation() : IllegalTreeOperation
- ILPDCWrapper() : ILPDCWrapper
- importDBSearchParameters_() : IdentificationDataConverter
- importExperimentalSettings() : XMassFile
- importIDs() : IdentificationDataConverter
- importSequences() : IdentificationDataConverter
- IMSAlphabet() : IMSAlphabet
- IMSElement() : IMSElement
- IMSIsotopeDistribution() : IMSIsotopeDistribution
- inc() : Histogram< ValueType, BinSizeType >
- incFrom() : Histogram< ValueType, BinSizeType >
- include() : TOPPASScene
- IncludeExcludeTarget() : IncludeExcludeTarget
- includeMSMSPeptides_() : ProteinResolver
- includePipeline() : TOPPASBase
- InclusionExclusionList() : InclusionExclusionList
- incomingEdgesCount() : TOPPASVertex
- IncompatibleIterators() : IncompatibleIterators
- increase_LC_elution_peak_counter() : ProcessData
- increaseBoundingBox_() : IDMapper
- incUntil() : Histogram< ValueType, BinSizeType >
- index() : HashGrid< Cluster >::ConstIterator , HashGrid< Cluster >::Iterator , Matrix< Value >
- index2key() : LinearInterpolation< Key, Value >
- index2key_0() : BilinearInterpolation< Key, Value >
- index2key_1() : BilinearInterpolation< Key, Value >
- IndexedMzMLFileLoader() : IndexedMzMLFileLoader
- IndexedMzMLHandler() : IndexedMzMLHandler
- IndexOverflow() : IndexOverflow
- indexPair() : Matrix< Value >
- IndexUnderflow() : IndexUnderflow
- inEdgeHasChanged() : TOPPASOutputFileListVertex , TOPPASToolVertex , TOPPASVertex
- inEdgesBegin() : TOPPASVertex
- inEdgesEnd() : TOPPASVertex
- infer() : ProteinInference
- infer_() : ProteinInference
- inferFromPeptides() : ModificationDefinitionsSet
- inferMoreEdges_() : FeatureDeconvolution , MetaboliteFeatureDeconvolution
- inferPosteriorProbabilities() : BayesianProteinInferenceAlgorithm
- inferPosteriorProbabilities_() : BayesianProteinInferenceAlgorithm
- INIFileEditorWindow() : INIFileEditorWindow
- InIntensityRange() : InIntensityRange< PeakType >
- init() : AccurateMassSearchEngine , BackgroundControl , ContinuousWaveletTransform , ContinuousWaveletTransformNumIntegration , IsotopeWavelet , IsotopicDist , SignalToNoiseEstimator< Container > , TargetedSpectraExtractor::BinnedSpectrumComparator , TargetedSpectraExtractor::Comparator , TransformationModelInterpolated::Interpolator , Pattern< TNeedle, FuzzyAC >
- init_() : CubicSpline2d , GridBasedClustering< Metric > , MzDataHandler , MzXMLHandler , MassExplainer , NLargest , SplineInterpolatedPeaks , UniqueIdGenerator
- initBins_() : Histogram< ValueType, BinSizeType >
- initChannelMap() : ItraqConstants
- initDataStructures_() : XFDRAlgorithm
- initGridSearchFromParams_() : BayesianProteinInferenceAlgorithm
- initialize() : ConfidenceScoring , GaussFilterAlgorithm , OpenSwathScoring , SimRandomNumberGenerator
- initializeCluster() : QTCluster
- initializeDefaultParameters_() : TOPPViewBase
- initializeGL() : Spectrum3DOpenGLCanvas
- initializeGlm() : ConfidenceScoring
- initializeLookup() : MascotXMLFile
- initializeMap_() : FileTypes
- initializeMaps_() : SvmTheoreticalSpectrumGenerator
- initializeMIContrastMatrix() : MRMScoring
- initializeMIMatrix() : MRMScoring
- initializeMIPrecursorCombinedMatrix() : MRMScoring
- initializeMIPrecursorContrastMatrix() : MRMScoring
- initializeMIPrecursorMatrix() : MRMScoring
- initializeModificationsDB() : ModificationsDB
- initializeMZMLMap_() : FileTypes
- initializeScan() : IsotopeWaveletTransform< PeakType >
- initializeWT_() : PeakPickerCWT
- initializeXCorrContrastMatrix() : MRMScoring
- initializeXCorrMatrix() : MRMScoring
- initializeXCorrPrecursorCombinedMatrix() : MRMScoring
- initializeXCorrPrecursorContrastMatrix() : MRMScoring
- initializeXCorrPrecursorMatrix() : MRMScoring
- initIsotopeDistributions_() : CompNovoIdentificationBase , CompNovoIonScoringBase
- initModificationMassesRNA() : RNPxlModificationsGenerator
- initParam_() : RawTandemMSSignalSimulation , TOPPASToolVertex
- initParameters_() : SVMWrapper
- initParams() : FeatureFinderAlgorithmSHCtrl
- initPattern() : AhoCorasickAmbiguous
- initPlots() : PosteriorErrorProbabilityModel
- initvec() : Chromatogram , Spectrum , OSChromatogram , OSSpectrum
- INIUpdater() : INIUpdater
- InMSLevelRange() : InMSLevelRange< SpectrumType >
- InMzRange() : InMzRange< PeakType >
- InPrecursorMZRange() : InPrecursorMZRange< SpectrumType >
- inputFileReadable_() : TOPPBase
- InputLine() : FuzzyStringComparator::InputLine
- inputs() : LevMarqFitter1D::GenericFunctor , GumbelMaxLikelihoodFitter::Functor< _Scalar, NX, NY > , OptimizePick::OptPeakFunctor , TraceFitter::GenericFunctor , TwoDOptimization::TwoDOptFunctor
- InRTRange() : InRTRange< SpectrumType >
- insert() : KDTree< __K, _Val, _Acc, _Dist, _Cmp, _Alloc > , ConsensusFeature , ConstRefVector< ContainerT > , HashGrid< Cluster > , IsotopeDistribution , LogStream , MultiGradient , Param , Param::ParamNode
- insert_MZ_cluster_element() : ProcessData
- insert_new_observed_mz() : ProcessData
- insert_observed_mz() : ProcessData
- insertCalibrationPoint() : CalibrationData
- insertHit() : PeptideIdentification , ProteinIdentification
- insertIndistinguishableProteins() : ProteinIdentification
- insertIntoMultiIndex_() : IdentificationData
- insertmarker() : MarkerMower
- insertNewVertex_() : TOPPASBase
- insertNewVertexInCenter_() : TOPPASBase
- insertNotification() : LogStream
- insertPair() : ROCCurve
- insertProteinGroup() : ProteinIdentification
- insertProteinIDs_() : IDMergerAlgorithm
- insertRuns() : IDMergerAlgorithm
- insideBand_() : MapAlignmentAlgorithmSpectrumAlignment
- InspectInfile() : InspectInfile
- InspectOutfile() : InspectOutfile
- instance() : SuperHirnParameters
- instance_() : Factory< FactoryProduct > , SingletonRegistry
- Instrument() : Instrument
- InstrumentSettings() : InstrumentSettings
- InstrumentSettingsVisualizer() : InstrumentSettingsVisualizer
- InstrumentVisualizer() : InstrumentVisualizer
- InsufficientInput() : ClusterFunctor::InsufficientInput
- IntegerMassDecomposer() : IntegerMassDecomposer< ValueType, DecompositionValueType >
- integrate_() : ContinuousWaveletTransformNumIntegration , GaussFilterAlgorithm
- integratePeak() : PeakIntegrator
- integratePeak_() : PeakIntegrator
- integratePeaks_() : PeakPickerMRM
- intensity() : KDTreeFeatureMaps
- IntensityBalanceFilter() : IntensityBalanceFilter
- intensityFilterPassed_() : FeatureDeconvolution , MetaboliteFeatureDeconvolution
- IntensityIteratorWrapper() : IntensityIteratorWrapper< IteratorT >
- intensityLess_() : MetaboTargetedAssay
- intensityModeChange_() : Spectrum1DCanvas , Spectrum2DCanvas , Spectrum3DCanvas , SpectrumCanvas , SpectrumWidget
- intensityScore_() : FeatureFinderAlgorithmPicked
- InternalCalibration() : InternalCalibration
- interpolatedColorAt() : MultiGradient
- InterpolationModel() : InterpolationModel
- Interpretation() : Interpretation
- interpretRetentionTime_() : TransitionTSVFile
- intersection_() : FeatureFinderAlgorithmPicked
- intersects() : DBoundingBox< D > , DRange< D >
- intersects_with() : _Region< __K, _Val, _SubVal, _Acc, _Cmp >
- invalidate_() : HistogramWidget
- InvalidIterator() : InvalidIterator
- InvalidParameter() : InvalidParameter
- InvalidRange() : InvalidRange
- InvalidSize() : InvalidSize
- InvalidValue() : InvalidValue
- invert() : TransformationDescription , TransformationModelLinear
- invertRecylingMode() : TOPPASToolVertex , TOPPASVertex
- IOException() : IOException
- IOInfo() : TOPPASToolVertex::IOInfo
- IonDetector() : IonDetector
- IonDetectorVisualizer() : IonDetectorVisualizer
- IonizationSimulation() : IonizationSimulation
- ionize() : IonizationSimulation
- ionizeEsi_() : IonizationSimulation
- ionizeMaldi_() : IonizationSimulation
- IonMobilityScoring() : IonMobilityScoring
- IonScore() : CompNovoIonScoringBase::IonScore , DeNovoIonScoring::IonScore
- IonSource() : IonSource
- IonSourceVisualizer() : IonSourceVisualizer
- IonType() : SvmTheoreticalSpectrumGenerator::IonType
- iRpropPlus() : EmgGradientDescent , EmgGradientDescent_friend
- isActive() : ChargePair , DataFilters , OpenSwathOSWWriter , OpenSwathTSVWriter
- isAmbiguous() : Ribonucleotide
- isAnyList() : TOPPASToolVertex::IOInfo
- isBetterScore() : IdentificationData
- isCharged() : EmpiricalFormula
- isChildOf() : ControlledVocabulary
- isCleavageSite_() : EnzymaticDigestionLogModel
- isCompatible() : AdductInfo , BinnedSpectrum , ModificationDefinitionsSet
- isConflicting() : Compomer
- isConsensusFeatureVisible_() : Spectrum2DCanvas
- isContained() : BaseModel< D >
- isCutoffEnabled() : TOPPViewOpenDialog
- isDataDIA() : TOPPViewOpenDialog
- isDetectingTransition() : ReactionMonitoringTransition , LightTransition
- isDIAData() : LayerData
- isDirectory() : File
- isDrawInterestingMZs() : Spectrum1DCanvas
- isDryRun() : TOPPASScene
- isEdgeAllowed_() : TOPPASScene
- isEditable() : BaseVisualizerGUI , MetaDataBrowser
- isEmpty() : DataValue , DBoundingBox< D > , DRange< D > , EmpiricalFormula
- IsEmptySpectrum() : IsEmptySpectrum< SpectrumType >
- isEnd_() : MatchedIterator< CONT_T, TRAIT, CONST_T >
- isExperimentCached() : SimpleOpenMSSpectraFactory
- isFeatureValid_() : IonizationSimulation
- isFinished() : TOPPASVertex
- isFixedModification() : ModificationDefinition
- isFractionated() : ExperimentalDesign
- isGUIMode() : TOPPASScene
- isHidden() : HMMState
- isHigherBetterScore() : ControlledVocabulary::CVTerm
- isHigherScoreBetter() : PeptideIdentification , ProteinIdentification
- isIdentifyingTransition() : ReactionMonitoringTransition , LightTransition
- isInCache_() : LogStreamBuf
- IsInCollisionEnergyRange() : IsInCollisionEnergyRange< SpectrumType >
- isInf() : MzTabNullNaNAndInfAbleBase , MzTabNullNaNAndInfAbleInterface
- IsInIsolationWindow() : IsInIsolationWindow< SpectrumType >
- IsInIsolationWindowSizeRange() : IsInIsolationWindowSizeRange< SpectrumType >
- isInitIsotopeDist() : SuperHirnParameters
- isInPackage() : SplinePackage
- isInResidueSet() : Residue
- isInstantiated() : ModificationsDB
- isInSwath_() : MRMAssay
- isInternallyConsistent() : MRMTransitionGroup< ChromatogramType, TransitionType >
- isIntersected() : DRange< D >
- isInvalid() : QTCluster
- isIonLadderVisible() : Spectrum1DCanvas
- isIonMobilityData() : LayerData
- isLegalIsotopePattern_() : FeatureFindingMetabo
- isLegendShown() : AxisWidget , Spectrum3DCanvas , Spectrum3DWidget , SpectrumWidget
- isLogScale() : AxisWidget
- isMapConsistent() : ConsensusMap
- isMappingConsistent_() : MRMTransitionGroup< ChromatogramType, TransitionType >
- isMatch_() : IDMapper
- isMetaEmpty() : MetaInfoInterface
- isModified() : AASequence , ParamEditor , Residue , Ribonucleotide
- isMzToXAxis() : SpectrumCanvas
- isNaN() : MzTabNullNaNAndInfAbleBase , MzTabNullNaNAndInfAbleInterface
- isNonEmptyCell() : ClusteringGrid
- isNull() : MzTabDoubleList , MzTabIntegerList , MzTabModification , MzTabModificationList , MzTabNullAbleBase , MzTabNullAbleInterface , MzTabNullNaNAndInfAbleBase , MzTabParameter , MzTabParameterList , MzTabSpectraRef , MzTabString , MzTabStringList
- IsobaricChannelExtractor() : IsobaricChannelExtractor
- IsobaricChannelInformation() : IsobaricQuantitationMethod::IsobaricChannelInformation
- IsobaricNormalizer() : IsobaricNormalizer
- IsobaricQuantifier() : IsobaricQuantifier
- IsobaricQuantifierStatistics() : IsobaricQuantifierStatistics
- IsobaricQuantitationMethod() : IsobaricQuantitationMethod
- isOneTableFile_() : ExperimentalDesignFile
- isoPeakMeans() : OPXLHelper
- isOpen() : Bzip2Ifstream , GzipIfstream
- isOpenMSDataPath_() : File
- IsoSpecOrderedGeneratorWrapper() : IsoSpecOrderedGeneratorWrapper
- IsoSpecThresholdGeneratorWrapper() : IsoSpecThresholdGeneratorWrapper
- IsoSpecThresholdWrapper() : IsoSpecThresholdWrapper
- IsoSpecTotalProbGeneratorWrapper() : IsoSpecTotalProbGeneratorWrapper
- IsoSpecTotalProbWrapper() : IsoSpecTotalProbWrapper
- IsotopeCluster() : IsotopeCluster
- IsotopeDiffFilter() : IsotopeDiffFilter
- IsotopeDistribution() : IsotopeDistribution
- IsotopeDistributionCache() : IsotopeDistributionCache
- IsotopeFitter1D() : IsotopeFitter1D
- IsotopeMarker() : IsotopeMarker
- IsotopeModel() : IsotopeModel
- IsotopePattern() : FeatureFinderAlgorithmPickedHelperStructs::IsotopePattern
- IsotopePatternGenerator() : IsotopePatternGenerator
- isotopeScore_() : FeatureFinderAlgorithmPicked
- IsotopeWavelet() : IsotopeWavelet
- IsotopeWaveletTransform() : IsotopeWaveletTransform< PeakType >
- isPeptide() : TransitionTSVFile::TSVTransition , LightCompound
- isPipelineRunning() : TOPPASScene
- isPPM() : SpectrumAlignmentDialog
- isPrefix() : PeptideIndexing
- isProductChargeStateSet() : ReactionMonitoringTransition , LightTransition
- isProteinInMinimalList() : PSProteinInference
- isQuantifyable_() : MSstatsFile
- isQuantifyingTransition() : ReactionMonitoringTransition , LightTransition
- isReachable() : TOPPASVertex
- isRecyclingEnabled() : TOPPASVertex
- isRegistered() : Factory< FactoryProduct > , SingletonRegistry
- isRTColumnOn() : RTSimulation
- isRTset() : RetentionTime
- isRunning() : StopWatch
- isSameHandle() : MapAlignmentEvaluationAlgorithm
- isSameProtein_() : XFDRAlgorithm
- isSelected() : Annotation1DItem
- isSemanticallyValid() : MzDataFile , MzIdentMLFile , MzMLFile , MzQuantMLFile , TraMLFile
- isSingleAdduct() : Compomer
- isSorted() : MSChromatogram , MSExperiment , MSSpectrum
- isSortedByRT() : OnDiscMSExperiment
- isSubsampledSpectrum_() : SwathQC
- isSuperSetOf() : QCBase::Status
- isSupported() : FileHandler
- isToolReady() : TOPPASToolVertex
- isTopoSortMarked() : TOPPASVertex
- isTrained() : MZTrafoModel
- isUpstreamFinished() : TOPPASVertex
- isUserDefined() : ResidueModification
- isValid() : ClusterProxyKD , FeatureFinderAlgorithmPickedHelperStructs::MassTrace , FeatureFinderAlgorithmPickedHelperStructs::MassTraces , Gradient , XMLFile , MzMLFile , Param::ParamEntry , PeakIndex , UniqueIdInterface , XMLValidator
- isValid_() : ExperimentalDesign
- isValidHashedReference_() : IdentificationData
- isValidModel() : MZTrafoModel
- isValidPrecursor_() : IsobaricChannelExtractor
- isValidProduct() : EnzymaticDigestion , ProteaseDigestion
- isValidProduct_() : EnzymaticDigestion
- isValidReference_() : IdentificationData
- IsZoomSpectrum() : IsZoomSpectrum< SpectrumType >
- itemChanged() : TheoreticalSpectrumGenerationDialog
- itemClicked() : TOPPASScene
- itemDragged() : TOPPASVertex
- itemReleased() : TOPPASScene
- iterateFeatureMap() : QCBase
- Iterator() : AASequence::Iterator , HashGrid< Cluster >::Iterator , NASequence::Iterator
- iteratorsSet() : PeakShape
- IteratorWrapper() : IteratorWrapper< Iterator >
- ItraqEightPlexQuantitationMethod() : ItraqEightPlexQuantitationMethod
- ItraqFourPlexQuantitationMethod() : ItraqFourPlexQuantitationMethod
- ITRAQLabeler() : ITRAQLabeler