- d -

• DataFilter() : DataFilters::DataFilter
• DataFilterDialog() : DataFilterDialog
• DataFilters() : DataFilters
• DataMatrix() : DataMatrix
• DataPoint() : TransformationModel::DataPoint
• DataProcessing() : DataProcessing
• DataProcessingSoftware() : DataProcessingSoftware
• DataProcessingStep() : DataProcessingStep
• DataProcessingVisualizer() : DataProcessingVisualizer
• DataQuery() : DataQuery
• dataToWidget() : Spectrum1DCanvas
• dataToWidget_() : Spectrum2DCanvas , SpectrumCanvas
• dataToZoomArray_() : Spectrum3DOpenGLCanvas
• DataValue() : DataValue
• Date() : Date
• DateTime() : DateTime
• DBoundingBox() : DBoundingBox< D >
• dbPreprocessing() : PrecursorIonSelectionPreprocessing
• DBSearchParam() : DBSearchParam
• DBSuitability() : DBSuitability
• deactivate1DSpectrum() : TOPPViewIdentificationViewBehavior , TOPPViewSpectraViewBehavior
• deactivateBehavior() : TOPPViewIdentificationViewBehavior , TOPPViewSpectraViewBehavior
• deactivatePrecalculationMode() : MultiGradient
• debug() : BSpline2d
• debugFileCreator_() : MapAlignmentAlgorithmSpectrumAlignment
• debugOut_() : TOPPASVertex
• debugscoreDistributionCalculation_() : MapAlignmentAlgorithmSpectrumAlignment
• decode() : Base64
• decodeBase64Arrays() : MzMLHandlerHelper
• decodeBinaryDataChrom_() : MzMLSpectrumDecoder
• decodeBinaryDataMSChrom_() : MzMLSpectrumDecoder
• decodeBinaryDataMSSpectrum_() : MzMLSpectrumDecoder
• decodeBinaryDataSpectrum_() : MzMLSpectrumDecoder
• decodeCompressed_() : Base64
• decodeIntegers() : Base64
• decodeIntegersCompressed_() : Base64
• decodeIntegersUncompressed_() : Base64
• decodeNP() : MSNumpressCoder
• decodeNPInternal_() : MSNumpressCoder
• decodeNPRaw() : MSNumpressCoder
• decodeSingleString() : Base64
• decodeStrings() : Base64
• decodeUncompressed_() : Base64
• deconvolutePeak_() : PeakPickerCWT
• DeconvPeak() : DeconvPeak
• DecoyGenerator() : DecoyGenerator
• DefaultParamHandler() : DefaultParamHandler
• defaultsToParam_() : DefaultParamHandler
• defineDefaults() : DiaPrescore
• defineLCElutionPeakParametersFromMSPeak() : LCElutionPeak
• deisotopeAndSingleCharge() : Deisotoper
• deisotopeAndSingleChargeMSSpectrum_() : NucleicAcidSearchEngine
• Deisotoper() : Deisotoper
• deleteData_() : GradientVisualizer
• deletePredecessorState() : HMMState
• deleteRow() : LPWrapper
• deleteSetNull_() : MzMLSwathFileConsumer
• deleteSuccessorState() : HMMState
• delta() : SysInfo::MemUsage
• delta_D() : SpectraSTSimilarityScore
• DeltaMass() : MultiplexDeltaMasses::DeltaMass
• DeNovoAlgorithm() : DeNovoAlgorithm
• DeNovoIdentification() : DeNovoIdentification
• DeNovoIonScoring() : DeNovoIonScoring
• DeNovoPostScoring() : DeNovoPostScoring
• DepletedIDPool() : DepletedIDPool
• derivative() : BSpline2d , LinearInterpolation< Key, Value >
• derivatives() : BSpline2d , CubicSpline2d
• deriveChargeStates() : SHFeature
• descriptionUpdated_() : TOPPASBase
• deselectAll() : Annotations1DContainer
• deselectItemAt() : Annotations1DContainer
• destroy() : IsotopeWavelet , IsotopeWaveletTransform< PeakType >::TransSpectrum
• destroyProblem() : LibSVMEncoder
• DetectabilitySimulation() : DetectabilitySimulation
• detectElutionPeaks_() : ElutionPeakDetection
• detectingTransitions() : MRMAssay
• detectingTransitionsCompound() : MRMAssay
• detectPeaks() : ElutionPeakDetection
• determineChargeState_() : PeakPickerCWT
• determineHighestScoringPermutations_() : AScore
• determinePeptideIntensitiesCentroided_() : FeatureFinderMultiplexAlgorithm
• determinePeptideIntensitiesProfile_() : FeatureFinderMultiplexAlgorithm
• df() : EGHFitter1D::EGHFitterFunctor , EGHTraceFitter::EGHTraceFunctor , EmgFitter1D::EgmFitterFunctor , GaussTraceFitter::GaussTraceFunctor , LevMarqFitter1D::GenericFunctor , OptimizePick::OptPeakFunctor , TraceFitter::GenericFunctor , TwoDOptimization::TwoDOptFunctor
• dfs_ccsplit_visitor() : IDBoostGraph::dfs_ccsplit_visitor
• dfsVisit_() : TOPPASScene
• dia_by_ion_score() : DIAScoring
• dia_isotope_scores() : DIAScoring
• dia_massdiff_score() : DIAScoring
• dia_ms1_isotope_scores() : DIAScoring
• dia_ms1_massdiff_score() : DIAScoring
• diagonal() : DIntervalBase< D >
• diaIsotopeScoresSub_() : DIAScoring
• DiaPrescore() : DiaPrescore
• DIAScoring() : DIAScoring
• diff_str_() : SysInfo::MemUsage
• diffEstimatedEmpirical() : FalseDiscoveryRate
• digest() : DigestSimulation , EnzymaticDigestionLogModel , ProteaseDigestion , RNaseDigestion
• digestAfterTokenize_() : EnzymaticDigestion
• digestDatabase() : OPXLHelper
• Digestion() : Digestion
• DigestionEnzyme() : DigestionEnzyme
• DigestionEnzymeDB() : DigestionEnzymeDB< DigestionEnzymeType, InstanceType >
• DigestionEnzymeProtein() : DigestionEnzymeProtein
• DigestionFilter() : IDFilter::DigestionFilter
• DigestionVisualizer() : DigestionVisualizer
• DigestSimulation() : DigestSimulation
• digestUnmodified() : EnzymaticDigestion
• dimensionsize() : DistanceMatrix< Value >
• DIntervalBase() : DIntervalBase< D >
• directoryChanged() : OutputDirectory
• dirNameValid() : OutputDirectory
• disable_() : ToolsDialog
• disableCutoff() : TOPPViewOpenDialog
• disableDimension() : TOPPViewOpenDialog
• disabledValue() : IDFilter::PeptideDigestionFilter
• disableLocation() : TOPPViewOpenDialog
• disableTransition() : HiddenMarkovModel
• disableTransition_() : HiddenMarkovModel
• disableTransitions() : HiddenMarkovModel
• disconnect() : _Alloc_base< _Tp, _Alloc >::NoLeakAlloc
• discover_vertex() : IDBoostGraph::dfs_ccsplit_visitor
• dist_() : LocalLinearMap
• distance_() : FeatureDistance
• DistanceMatrix() : DistanceMatrix< Value >
• DistanceParams_() : FeatureDistance::DistanceParams_
• distribute_() : LogStreamBuf
• divideByGCD() : Weights
• DivisionByZero() : DivisionByZero
• doCacheFile_() : SwathFile
• doCleanup_() : MSDataWritingConsumer , NoopMSDataWritingConsumer
• DocumentIdentifier() : DocumentIdentifier
• DocumentIdentifierVisualizer() : DocumentIdentifierVisualizer
• DocumentIDTagger() : DocumentIDTagger
• doDataNormalization_() : OpenSwathCalibrationWorkflow
• doesParamChangeInvalidate_() : TOPPASToolVertex
• domParseChromatogram() : MzMLSpectrumDecoder
• domParseIndexedEnd_() : IndexedMzMLDecoder
• domParseSpectrum() : MzMLSpectrumDecoder
• domParseString_() : MzMLSpectrumDecoder
• done() : MascotRemoteQuery , NetworkGetRequest
• doPopulateSpectraWithData_() : MzXMLHandler
• dot_bias() : SpectraSTSimilarityScore
• DoubleTolerancePredicate_() : ListUtils::DoubleTolerancePredicate_
• downloadProgress() : MascotRemoteQuery
• downloadTOPPASfromHomepage_() : TOPPASBase
• DPosition() : DPosition< D, TCoordinateType >
• dragEnterEvent() : EnhancedTabBar , EnhancedWorkspace , InputFile , InputFileList , SpectrumWidget , TOPPASWidget
• dragMoveEvent() : EnhancedWorkspace , InputFile , InputFileList , SpectrumWidget , TOPPASWidget
• DRange() : DRange< D >
• draw() : Annotation1DCaret , Annotation1DDistanceItem , Annotation1DItem , Annotation1DPeakItem , Annotation1DTextItem
• drawAlignment() : Spectrum1DCanvas
• drawAnnotations() : Spectrum1DCanvas
• drawAxesLegend_() : Spectrum3DOpenGLCanvas
• drawBoundingBox_() : Annotation1DItem
• drawCoordinates_() : Spectrum1DCanvas , Spectrum2DCanvas
• drawDashedLine_() : Spectrum1DCanvas
• drawDeltas_() : Spectrum1DCanvas , Spectrum2DCanvas
• drawHighlightedPeak_() : Spectrum1DCanvas
• drawMZAtInterestingPeaks_() : Spectrum1DCanvas
• drawText_() : SpectrumCanvas
• driftScoring() : IonMobilityScoring
• driftScoringMS1() : IonMobilityScoring
• driftScoringMS1Contrast() : IonMobilityScoring
• dropEvent() : EnhancedTabBar , EnhancedWorkspace , InputFile , InputFileList , SpectrumWidget , TOPPASWidget
• dropOnTab() : EnhancedTabBar
• dropOnWidget() : EnhancedTabBar
• dropReceived() : EnhancedWorkspace , SpectrumWidget
• dryRunFinished() : TOPPASScene
• DTA2DFile() : DTA2DFile
• DTAFile() : DTAFile
• dump() : HiddenMarkovModel
• dunnIndices() : ClusterAnalyzer
• dynprog_() : SpectrumCheapDPCorr