Here is a list of all class members with links to the classes they belong to:
- e -
- E_
: ProtonDistributionModel
- e_
: MapAlignmentAlgorithmSpectrumAlignment
, TrypticIterator
, EdwardsLippertIterator
- E_c_term_
: ProtonDistributionModel
- E_n_term_
: ProtonDistributionModel
- ECD
: Precursor
- edge
: TOPPASVertex::VertexRoundPackage
- edge_
: TOPPASIOMappingDialog
- edge_being_created_
: TOPPASVertex
- EdgeContainer
: TOPPASScene
, TOPPASVertex
- EdgeIterator
: TOPPASScene
, TOPPASVertex
- edges_
: TOPPASScene
- edgesBegin()
: TOPPASScene
- edgesEnd()
: TOPPASScene
- EdgeStatus
: TOPPASEdge
- edit()
: ParamTree
- editable_
: MetaDataBrowser
, BaseVisualizerGUI
- editCurrentItem()
: TOPPASInputFilesDialog
- editMetadata()
: TOPPViewBase
- editor_
: INIFileEditorWindow
, ToolsDialog
, TOPPASToolConfigDialog
- editParam()
: TOPPASToolVertex
- EDTA
: FileTypes
- EDTAFile()
: EDTAFile
- EdwardsLippertIterator()
: EdwardsLippertIterator
- EdwardsLippertIteratorTryptic()
: EdwardsLippertIteratorTryptic
- egh_tau_location_
: RTSimulation
- egh_tau_scale_
: RTSimulation
- egh_variance_location_
: RTSimulation
- egh_variance_scale_
: RTSimulation
- EGHFitter1D()
: EGHFitter1D
- EGHModel()
: EGHModel
- EGHTraceFitter()
: EGHTraceFitter< PeakType >
- EI
: IonSource
- EIGHTPLEX
: ItraqConstants
- EINZEL_LENS
: Instrument
- ELECTROMAGNETIC_RADIATION_CHROMATOGRAM
: ChromatogramSettings
- ELECTRON_MASS_IN_U
: IMSElement
- ELECTRONMULTIPLIER
: IonDetector
- ELECTRONMULTIPLIERTUBE
: IonDetector
- ELECTROSPRAYINLET
: IonSource
- Element()
: Element
- element_1_
: FuzzyStringComparator
- element_2_
: FuzzyStringComparator
- element_db_
: EmpiricalFormula
- element_path_
: CVMappingRule
- element_type
: IMSAlphabet
- ElementDB()
: ElementDB
- ElementNotFound()
: ElementNotFound
- elements_
: IMSAlphabetTextParser
, SILACFilter
, IMSAlphabet
- eluents_
: Gradient
, GradientVisualizer
- elution_model_fit_score
: OpenSwath_Scores
- elution_peak
: ProcessData
- elutionModelFit()
: EmgScoring
- ElutionPeakDetection()
: ElutionPeakDetection
- elutionPeakExtraInfo
: LCElutionPeak
- email_
: ContactPerson
, ContactPersonVisualizer
- EMC
: InstrumentSettings
- EmgFitter1D()
: EmgFitter1D
- EmgModel()
: EmgModel
- EmgScoring()
: EmgScoring
- emgscoring_
: MRMFeatureFinderScoring
- EMISSION
: InstrumentSettings
- EMISSION_CHROMATOGRAM
: ChromatogramSettings
- emitChanged()
: TOPPASEdge
- emitToolStarted()
: TOPPASToolVertex
- empirical_formula_
: AccurateMassSearchResult
- EmpiricalFormula()
: EmpiricalFormula
- EMPTY
: VersionInfo::VersionDetails
, DataValue
, String
- empty
: DIntervalBase< D >
, AASequence
, IMSIsotopeDistribution
, HashGrid< Cluster >
, ConstRefVector< ContainerT >
, Param
, SparseVector< Value >
, ConsensusFeature
, MSExperiment< PeakT, ChromatogramPeakT >
, BilinearInterpolation< Key, Value >
, LinearInterpolation< Key, Value >
, CVTermList
, MetaInfo
, PeptideIdentification
, File
- empty_channels
: IsobaricQuantifierStatistics
, ItraqQuantifier::ItraqQuantifierStats
- empty_list_
: TOPPASResources
- EMPTY_VALUE
: DataValue
- EMR
: InstrumentSettings
- EMULSION
: Sample
- enable_()
: ToolsDialog
- enable_binarization
: LPWrapper::SolverParam
- enable_clq_cuts
: LPWrapper::SolverParam
- enable_cov_cuts
: LPWrapper::SolverParam
- enable_feas_pump_heuristic
: LPWrapper::SolverParam
- enable_gmi_cuts
: LPWrapper::SolverParam
- enable_intensity_filter_
: FeatureDeconvolution
- enable_mir_cuts
: LPWrapper::SolverParam
- enable_presolve
: LPWrapper::SolverParam
- enabled_trans_
: HiddenMarkovModel
- enableFeatureNumber()
: Spectrum2DGoToDialog
- enableIonStates_()
: PILISNeutralLossModel
- enableLogging_()
: TOPPBase
- enableTransition()
: HiddenMarkovModel
- enableTransition_()
: HiddenMarkovModel
- encloses()
: ConvexHull2D
, DBoundingBox< D >
, DRange< D >
, Feature
- encode()
: Base64
- encodeCompositionVector()
: LibSVMEncoder
- encodeCompositionVectors()
: LibSVMEncoder
- encodeIntegers()
: Base64
- encodeLibSVMProblem()
: LibSVMEncoder
- encodeLibSVMProblemWithCompositionAndLengthVectors()
: LibSVMEncoder
- encodeLibSVMProblemWithCompositionLengthAndWeightVectors()
: LibSVMEncoder
- encodeLibSVMProblemWithCompositionVectors()
: LibSVMEncoder
- encodeLibSVMProblemWithOligoBorderVectors()
: LibSVMEncoder
- encodeLibSVMVector()
: LibSVMEncoder
- encodeLibSVMVectors()
: LibSVMEncoder
- encodeOligo()
: LibSVMEncoder
- encodeOligoBorders()
: LibSVMEncoder
- encodeProblemWithOligoBorderVectors()
: LibSVMEncoder
- encoder_
: Base64
- encodeStrings()
: Base64
- end
: ScanWindow
, AASequence
, EmpiricalFormula
, IsotopeDistribution
, HashGrid< Cluster >
, BinnedSpectrum
, ConstRefVector< ContainerT >
, DPosition< D, TCoordinateType >
, Param
, SparseVector< Value >
, ConsensusFeature
, MassTrace
, MSExperiment< PeakT, ChromatogramPeakT >
, Histogram< ValueType, BinSizeType >
, IsotopeWaveletTransform< PeakType >::TransSpectrum
- end_
: ProgressLogger
, PeptideEvidence
, ScanWindowVisualizer
- end_boxes_
: IsotopeWaveletTransform< PeakType >
- end_left_padding_
: ContinuousWaveletTransform
- end_peak_
: AreaIterator< ValueT, ReferenceT, PointerT, SpectrumIteratorT, PeakIteratorT >
- end_point_
: Annotation1DDistanceItem
- end_scan_
: AreaIterator< ValueT, ReferenceT, PointerT, SpectrumIteratorT, PeakIteratorT >
- endElement()
: ConsensusXMLFile
, CVMappingFile
, FeatureXMLFile
, MascotXMLHandler
, MzDataHandler< MapType >
, MzIdentMLHandler
, MzMLHandler< MapType >
, MzQuantMLHandler
, MzXMLHandler< MapType >
, ParamXMLHandler
, PTMXMLHandler
, ToolDescriptionHandler
, TraMLHandler
, UnimodXMLHandler
, XMLHandler
, XTandemInfileXMLHandler
, IdXMLFile
, OMSSAXMLFile
, PepXMLFile
, PepXMLFileMascot
, ProtXMLFile
, QcMLFile
, SemanticValidator
, XTandemXMLFile
- endians_
: MzDataHandler< MapType >
- EndParsingSoftly()
: XMLHandler::EndParsingSoftly
- endPos()
: TOPPASEdge
- endProgress()
: ProgressLogger
- endResidue()
: ResidueDB
- endRun_()
: MascotRemoteQuery
- endScan
: MS2ConsensusSpectrum
- endTR
: MS2ConsensusSpectrum
- enforced_encoding_
: XMLFile
- enforceEncoding_()
: XMLFile
- engine_
: ProteinIdentificationVisualizer
- engine_version_
: ProteinIdentificationVisualizer
- EnhancedTabBar()
: EnhancedTabBar
- EnhancedWorkspace()
: EnhancedWorkspace
- enhancedWorkspaceWindowChanged()
: TOPPViewBase
- enlarge()
: DBoundingBox< D >
- enqueueProcess()
: TOPPASScene
- ensureAnnotationsWithinDataRange_()
: Spectrum1DCanvas
- ensureLastChar()
: String
- ensureUniqueId()
: UniqueIdInterface
- ensureWithinDataRange()
: Annotation1DDistanceItem
, Annotation1DItem
, Annotation1DPeakItem
, Annotation1DTextItem
- enterEvent()
: SpectrumCanvas
, TOPPASTreeView
, TOPPASWidget
- entirePipelineFinished()
: TOPPASScene
- entries
: Param::ParamNode
- entries_
: MzTabDoubleList
, MzTabStringList
, MzTabModificationList
- EntryIterator
: Param::ParamNode
- entrys_
: FastaIteratorIntern
- EnzymaticDigestion()
: EnzymaticDigestion
- enzyme
: ProteinIdentification::SearchParameters
- Enzyme
: EnzymaticDigestion
- enzyme_
: PepXMLFile
, EnzymaticDigestion
, InspectInfile
, Digestion
, ProteinIdentificationVisualizer
, FoundProteinFunctor
- enzyme_info_
: SequestInfile
- enzyme_number_
: SequestInfile
- ENZYME_TRYPSIN
: EnzymaticDigestion
- eol_
: CSVWriter
- eps_abs_
: OptimizePick
, TwoDOptimization
- eps_rel_
: OptimizePick
, TwoDOptimization
- epsilon_abs_
: TraceFitter< PeakType >
- epsilon_rel_
: TraceFitter< PeakType >
- EQUAL
: DataFilters
- equal_()
: XMLHandler
- EqualInTolerance()
: EqualInTolerance< CompareType >
- erase()
: IMSAlphabet
, HashGrid< Cluster >
, ConstRefVector< ContainerT >
, SparseVector< Value >
, ConstRefVector< ContainerT >
- erase_match_list()
: SHFeature
- erase_MZ_cluster_element()
: ProcessData
- erase_MZ_LIST_element()
: ProcessData
- eraseFloatDataArrayEntry_()
: MapAlignmentAlgorithmSpectrumAlignment
- error()
: XMLHandler
, XMLValidator
, XMLHandler
- error_medians_
: TOFCalibration
- error_message_
: MascotRemoteQuery
, XMLHandler
- error_name_
: DefaultParamHandler
- error_occured_
: TOPPASScene
- error_ppm_
: AccurateMassSearchResult
- error_streams_
: LogConfigHandler
- errors_
: TOFCalibration
, SemanticValidator
- errorString()
: XMLHandler
- ErrorUnit
: XTandemInfile
- ertable_
: IntegerMassDecomposer< ValueType, DecompositionValueType >
- ES_FILE_EXT_MISMATCH
: TOPPASEdge
- ES_MERGER_EXT_MISMATCH
: TOPPASEdge
- ES_MERGER_WITHOUT_TOOL
: TOPPASEdge
- ES_NO_SOURCE_PARAM
: TOPPASEdge
- ES_NO_TARGET_PARAM
: TOPPASEdge
- ES_NOT_READY_YET
: TOPPASEdge
- ES_TOOL_API_CHANGED
: TOPPASEdge
- ES_UNKNOWN
: TOPPASEdge
- ES_VALID
: TOPPASEdge
- ESA
: MassAnalyzer
- ESCAPE
: String
- ESI
: IonSource
, IonizationSimulation
- esi_adducts_
: IonizationSimulation
- esi_impurity_probabilities_
: IonizationSimulation
- esi_probability_
: IonizationSimulation
- estimate_()
: SignalToNoiseEstimator< Container >
- estimateFromPeptideWeight()
: IsotopeDistribution
- estimateFWHM()
: PeakWidthEstimator
, MassTrace
- estimateNoiseFromRandomMS1Scans()
: TOPPViewBase
- estimatePeakWidth()
: SILACAnalyzer
, PeakPickerCWT
- estimatePrecursorWeight_()
: CompNovoIdentificationBase
, CompNovoIdentification
- estimateSpectrumFWHM()
: PeakWidthEstimator
- estimateType()
: PeakTypeEstimator
- estimateUntrainedTransitions()
: HiddenMarkovModel
- ETD
: Precursor
- EuclideanSimilarity()
: EuclideanSimilarity
- evaluate()
: HiddenMarkovModel
, PILISModel
, MapAlignmentEvaluationAlgorithm
, MapAlignmentEvaluationAlgorithmRecall
, TransformationModelLinear
, PILISNeutralLossModel
, TransformationModel
, MapAlignmentEvaluationAlgorithmPrecision
, TransformationModelBSpline
, TransformationModelInterpolated
- evaluate2D_()
: TwoDOptimization
- evaluate_()
: EmgFitter1D
, EGHFitter1D
, EGHTraceFitter< PeakType >
, LmaGaussFitter1D
, GaussTraceFitter< PeakType >
, ModelFitter< PeakType, FeatureType >
, LmaIsotopeFitter1D
- evaluateEGH_()
: EGHModel
- event()
: QApplicationTOPP
- evidence
: Peptide
- exact_intensities_
: SILACFilter
- exact_mz_positions_
: SILACFilter
- exact_shifts_
: SILACFilter
- exception
: Summary
- exclude_targets_
: TargetedExperiment
- execQuery()
: MascotRemoteQuery
- executeQueries()
: DBConnection
- executeQuery()
: DBConnection
- EXECUTION_OK
: TOPPBase
- executionFinished()
: TOPPASToolVertex
- exist()
: IntegerMassDecomposer< ValueType, DecompositionValueType >
, MassDecomposer< ValueType, DecompositionValueType >
- exists()
: ControlledVocabulary
, MetaInfo
, File
- EXISTS
: DataFilters
- exists()
: MultiGradient
, Param
- exists_()
: ParamEditorDelegate
- existsRun()
: QcMLFile
- existsRunQualityParameter()
: QcMLFile
- existsSet()
: QcMLFile
- existsSetQualityParameter()
: QcMLFile
- ExitCodes
: TOPPBase
- exp_
: MzXMLHandler< MapType >
, MzDataHandler< MapType >
, PeakShape
, TraMLHandler
, MzMLHandler< MapType >
, SILACFiltering
- exp_masses_
: TOFCalibration
- exp_name_
: PepXMLFile
- exp_table_
: IsotopeWavelet
- exp_table_max_index_
: IsotopeWavelet
- expandPrefix_()
: LogStreamBuf
- expandToBoundingBox()
: ConvexHull2D
- expected_mz_shifts_
: SILACFilter
- expected_shifts_
: SILACFilter
- expected_size_
: FeatureXMLFile
- expected_value_
: LmaGaussFitter1D
, LmaGaussModel
- expectList_()
: XMLHandler
- experiment_
: PepXMLFile
, MSSim
- experiment_type_
: ConsensusMap
- experimental
: ProteinResolver::PeptideEntry
- experimental_mass_to_charge_
: IdentificationHit
- ExperimentalSettings()
: ExperimentalSettings
- ExperimentalSettingsVisualizer()
: ExperimentalSettingsVisualizer
- ExperimentSharedPtrType
: SpectrumCanvas
, LayerData
, TOPPViewBase
, TOPPViewSpectraViewBehavior
, Spectrum2DWidget
, TOPPViewIdentificationViewBehavior
- ExperimentType
: SpectrumCanvas
, TOPPViewBase
, TOPPViewSpectraViewBehavior
, TOPPViewIdentificationViewBehavior
, LayerData
, SpectrumWidget
- explanations_
: MassExplainer
- exponent
: FeatureDistance::DistanceParams_
- EXPONENTIAL
: MassAnalyzer
- exportAsImage()
: IDEvaluationBase
, TOPPASBase
- exportAttachment()
: QcMLFile
- exportEntries_()
: SpectraIdentificationViewWidget
- exportIDstats()
: QcMLFile
- exportMzTab_()
: AccurateMassSearchEngine
- exportQP()
: QcMLFile
- exportQPs()
: QcMLFile
- extend()
: SimpleExtender< PeakType, FeatureType >
- extendBox_()
: IsotopeWaveletTransform< PeakType >
- ExtendedIsotopeFitter1D()
: ExtendedIsotopeFitter1D
- ExtendedIsotopeModel()
: ExtendedIsotopeModel
- extendMassTrace_()
: FeatureFinderAlgorithmPicked< PeakType, FeatureType >
- extendMassTraces_()
: FeatureFinderAlgorithmPicked< PeakType, FeatureType >
- external_details
: ToolDescription
- EXTERNAL_PROGRAM_ERROR
: TOPPBase
- extract_elution_peaks()
: ProcessData
- extract_MS2_elution_features()
: FTPeakDetectController
- extract_value_bartlett()
: ChromatogramExtractor
- extract_value_tophat()
: ChromatogramExtractor
- extractChannels()
: IsobaricChannelExtractor
- extractChromatograms()
: ChromatogramExtractor
- extractFragmentsFromSpectra()
: ClusteredMS2ConsensusSpectrum
- extractIntensities_()
: ConfidenceScoring
- extractIntensityVectors()
: ConsensusMapNormalizerAlgorithmQuantile
- extractMarkerIons()
: MarkerIonExtractor
- extractMzShiftsAndIntensities_()
: SILACFilter
- extractMzShiftsAndIntensitiesPicked_()
: SILACFilter
- extractMzShiftsAndIntensitiesPickedToPattern_()
: SILACFilter
- extractNumberOfSubSamples_()
: MzTabFile
- extractNumPeptides_()
: MzTabFile
- extractNumPeptidesDistinct_()
: MzTabFile
- extractNumPeptidesUnambiguous_()
: MzTabFile
- extractPeaks()
: FeatureFinderAlgorithmSHCtrl
- extractPeptideModifications_()
: MzTabFile
- extractProteinAccession_()
: MzTabFile
- extraMSPeakInfo
: MSPeak
- extraPeakInfo_
: CentroidPeak