Here is a list of all class members with links to the classes they belong to:
- i -
- i
: Base64::Reinterpreter64_
, Base64::Reinterpreter32_
, IsotopeWavelet::fi_
- I_PEPTIDEMZ
: LayerData
- ICP
: IonSource
- ICPLLabeler()
: ICPLLabeler
- id
: SpectrumMeta
, Protein
, Compound
, LightPeptide
, Peptide
, Contact
, LightProtein
, Publication
, Instrument
, Peptide
, ControlledVocabulary::CVTerm
, QcMLFile::QualityParameter
, Protein
, QcMLFile::Attachment
, ChromatogramMeta
, IsobaricQuantitationMethod::IsobaricChannelInformation
, SpectrumMeta
- ID
: MS2Feature
- id
: ChromatogramMeta
, ItraqConstants::ChannelInfo
- ID
: MS2Info
- id
: CV
- id_
: IdXMLFile
, DocumentIdentifier
, Identification
, IdentificationHit
, PeptideEvidence
, PeptideIdentification
, ProteinIdentification
, SpectrumIdentification
, ResidueModification
, Compomer
, MzIdentMLHandler
- id_count
: PeptideAndProteinQuant::PeptideData
, PeptideAndProteinQuant::ProteinData
- id_data_
: MascotXMLHandler
- id_identifier_
: ConsensusXMLFile
, FeatureXMLFile
- id_tag_support_
: TOPPBase
- id_tagger_
: TOPPBase
- IDDecoyProbability()
: IDDecoyProbability
- Identification()
: Identification
- identification_
: SpectrumSettings
- identification_date_
: ProteinIdentificationVisualizer
- IDENTIFICATION_MAPPING
: DataProcessing
- identification_threshold_
: PeptideIdentificationVisualizer
, ProteinIdentificationVisualizer
- IdentificationHit()
: IdentificationHit
- identificationview_behavior_
: TOPPViewBase
- identifier
: ProteinResolver::ResolverResult
, FASTAFile::FASTAEntry
, MzTabSmallMoleculeSectionRow
- identifier_
: MascotXMLHandler
, Acquisition
, DocumentIdentifierVisualizer
, PeptideIdentificationVisualizer
, ProteinIdentificationVisualizer
, CVMappingRule
, CVReference
- identifier_id_
: ConsensusXMLFile
, FeatureXMLFile
- identifyCharge()
: IsotopeWaveletTransform< PeakType >
- IDEvaluationBase()
: IDEvaluationBase
- IDFilter()
: IDFilter
- IDINITIALUNTITLED
: TOPPASBase
- IDMapper()
: IDMapper
- IDRipper()
: IDRipper
- idsToRemove
: MS1FeatureMerger
- IDXML
: FileTypes
- IdXMLFile()
: IdXMLFile
- IEWindow()
: InclusionExclusionList::IEWindow
- ifs_
: SpectrumAccessOpenMSCached
- ignore_charge_
: IDMapper
, FeatureDistance
- ignore_update
: SpectraIdentificationViewWidget
- ILLEGAL_PARAMETERS
: TOPPBase
- IllegalArgument()
: IllegalArgument
- IllegalKey()
: Map< Key, T >::IllegalKey
- IllegalPosition()
: IllegalPosition
- IllegalSelfOperation()
: IllegalSelfOperation
- IllegalTreeOperation()
: IllegalTreeOperation
- ILP_IPS
: PrecursorIonSelection
- ILPDCWrapper()
: ILPDCWrapper
- im
: RawMSSignalSimulation::ContaminantInfo
- IM_ALL
: RawMSSignalSimulation
- IM_ESI
: RawMSSignalSimulation
- IM_LINEAR
: MultiGradient
- IM_LOG
: SpectrumCanvas
- IM_MALDI
: RawMSSignalSimulation
- IM_NONE
: SpectrumCanvas
- IM_PERCENTAGE
: SpectrumCanvas
- IM_SNAP
: SpectrumCanvas
- IM_STAIRS
: MultiGradient
- IMD
: Precursor
- importExperimentalSettings()
: XMassFile
- IMSAlphabet()
: IMSAlphabet
- IMSElement()
: IMSElement
- IMSIsotopeDistribution()
: IMSIsotopeDistribution
- in
: SILACAnalyzer
, TOPPViewBase
- in_description_
: FeatureXMLFile
- in_edges_
: TOPPASVertex
- in_filters
: SILACAnalyzer
- in_ini_section_
: ToolDescriptionHandler
- in_spectrum_list_
: MzMLHandler< MapType >
- inc()
: Histogram< ValueType, BinSizeType >
- inchi_key
: MzTabSmallMoleculeSectionRow
- include()
: TOPPASScene
- include_targets_
: TargetedExperiment
- IncludeExcludeTarget()
: IncludeExcludeTarget
- includeMSMSPeptides_()
: ProteinResolver
- includePipeline()
: TOPPASBase
- InclusionExclusionList()
: InclusionExclusionList
- incomingEdgesCount()
: TOPPASVertex
- INCOMPATIBLE_INPUT_DATA
: TOPPBase
- IncompatibleBinning()
: BinnedSpectrumCompareFunctor::IncompatibleBinning
- IncompatibleIterators()
: IncompatibleIterators
- incomplete_line_
: LogStreamBuf
- incorrectly_assigned_fit_param_
: PosteriorErrorProbabilityModel
- increase_LC_elution_peak_counter()
: ProcessData
- increaseBoundingBox_()
: IDMapper
- index
: DeNovoIonScoring::IonScore
, ChromatogramMeta
, SpectrumMeta
, ProteinResolver::ProteinEntry
, ProteinResolver::PeptideEntry
, ProteinResolver::MSDGroup
, ProteinResolver::ISDGroup
, ChromatogramMeta
, SpectrumMeta
, SimpleExtender< PeakType, FeatureType >::IndexWithPriority
, HashGrid< Cluster >::Iterator
, HashGrid< Cluster >::ConstIterator
, Matrix< Value >
- index2key()
: LinearInterpolation< Key, Value >
- index2key_0()
: BilinearInterpolation< Key, Value >
- index2key_1()
: BilinearInterpolation< Key, Value >
- index_
: SparseVector< Value >::ValueProxy
, SuffixArraySeqan
, FidHandler
, FeatureFinderDefs::NoSuccessor
- index_to_description_
: MetaInfoRegistry
- index_to_name_
: MetaInfoRegistry
- index_to_unit_
: MetaInfoRegistry
- index_to_value_
: MetaInfo
- indexed_schema_location_
: MzMLFile
- IndexOverflow()
: IndexOverflow
- IndexPair
: IsotopeCluster
, FeatureFinderDefs
- indexPair()
: Matrix< Value >
- IndexPosMappingType
: PepNovoOutfile
- IndexSet
: IsotopeCluster
, FeatureFinderDefs
, Fitter1D
- IndexSetIter
: ModelFitter< PeakType, FeatureType >
- IndexTriple
: OfflinePrecursorIonSelection
- IndexUnderflow()
: IndexUnderflow
- IndexWithPriority()
: SimpleExtender< PeakType, FeatureType >::IndexWithPriority
- indices_
: SuffixArrayTrypticCompressed
, IsotopeWaveletTransform< PeakType >
, SimpleSeeder< PeakType, FeatureType >
- indis
: ProteinResolver::ProteinEntry
- indistinguishable_proteins_
: ProteinIdentification
- individual_intensities_
: AccurateMassSearchResult
- INDUCTIVEDETECTOR
: IonDetector
- INDUCTIVELYCOUPLEDPLASMA
: IonSource
- inEdgeHasChanged()
: TOPPASOutputFileListVertex
, TOPPASToolVertex
, TOPPASVertex
- inEdgesBegin()
: TOPPASVertex
- inEdgesEnd()
: TOPPASVertex
- inf_
: SVOutStream
- infer()
: ProteinInference
- infer_()
: ProteinInference
- inferMoreEdges_()
: FeatureDeconvolution
- infile_
: XTandemInfileXMLHandler
- infinity
: FeatureDistance
- info_
: SpectrumCheapDPCorr
, UniqueIdGenerator
- info_streams_
: LogConfigHandler
- infty_
: IntegerMassDecomposer< ValueType, DecompositionValueType >
- INFUSION
: IonSource
- INI
: FileTypes
- ini_file_
: ToolsDialog
- ini_location_
: TOPPBase
- INIFileEditorWindow()
: INIFileEditorWindow
- InIntensityRange()
: InIntensityRange< PeakType >
- init()
: PILISModel
, SignalToNoiseEstimator< Container >
, IsotopeWavelet
, BackgroundControl
, IsotopicDist
, ContinuousWaveletTransform
, ContinuousWaveletTransformNumIntegration
- init_()
: ItraqChannelExtractor
, UniqueIdGenerator
, MassExplainer
, NLargest
, MzDataHandler< MapType >
, MzXMLHandler< MapType >
, PeakPickerCWT
- init_param_
: GammaDistributionFitter
, GaussFitter
, GumbelDistributionFitter
- init_prob_
: HiddenMarkovModel
- init_size_
: DistanceMatrix< Value >
- initChannelMap()
: ItraqConstants
- initialize()
: ConfidenceScoring
, SILACAnalyzer
, GaussFilterAlgorithm
, SimRandomNumberGenerator
- initialize_()
: SimpleSeeder< PeakType, FeatureType >
- initialized_
: SimpleSeeder< PeakType, FeatureType >
- initializeDefaultParameters_()
: TOPPViewBase
- initializedMaps_
: SvmTheoreticalSpectrumGenerator
- initializeGL()
: Spectrum3DOpenGLCanvas
- initializeGlm()
: ConfidenceScoring
- initializeMap_()
: FileTypes
- initializeMaps_()
: SvmTheoreticalSpectrumGenerator
- initializeMZMLMap_()
: FileTypes
- initializeScan()
: IsotopeWaveletTransform< PeakType >
- initializeWT_()
: PeakPickerCWT
- initializeXCorrMatrix()
: MRMScoring
- initialTrTolerance_
: SuperHirnParameters
- initIsotopeCorrections_()
: ItraqQuantifier
- initIsotopeDist_
: SuperHirnParameters
- initIsotopeDistributions_()
: CompNovoIdentificationBase
, CompNovoIonScoringBase
- initParam_()
: TOPPASToolVertex
- initParameters_()
: SVMWrapper
- initParams()
: FeatureFinderAlgorithmSHCtrl
- InitPlots()
: PosteriorErrorProbabilityModel
- initStaticMembers_()
: MzXMLHandler< MapType >
- initvec()
: Chromatogram
, Spectrum
, Chromatogram
, Spectrum
- INIUpdater()
: INIUpdater
- inlet_type_
: IonSource
, IonSourceVisualizer
- INLETNULL
: IonSource
- InletType
: IonSource
- InMSLevelRange()
: InMSLevelRange< SpectrumType >
- InMzRange()
: InMzRange< PeakType >
- InPrecursorMZRange()
: InPrecursorMZRange< SpectrumType >
- input_1_name_
: FuzzyStringComparator
- input_2_name_
: FuzzyStringComparator
- input_combo_
: ToolsDialog
- INPUT_FILE
: ParameterInformation
, ListEditor
- input_file_
: FastaIterator
- INPUT_FILE_CORRUPT
: TOPPBase
- INPUT_FILE_EMPTY
: TOPPBase
- INPUT_FILE_LIST
: ParameterInformation
- INPUT_FILE_NOT_FOUND
: TOPPBase
- INPUT_FILE_NOT_READABLE
: TOPPBase
- input_filename_
: XTandemInfile
- input_line_1_
: FuzzyStringComparator
- input_line_2_
: FuzzyStringComparator
- input_type
: ProteinResolver::ResolverResult
- inputFileReadable_()
: TOPPBase
- InputLine()
: FuzzyStringComparator::InputLine
- InRTRange()
: InRTRange< SpectrumType >
- insert()
: HashGrid< Cluster >
, LogStream
, ConstRefVector< ContainerT >
, Param::ParamNode
, Param
, ConsensusFeature
, MultiGradient
- insert_MZ_cluster_element()
: ProcessData
- insert_new_observed_mz()
: ProcessData
- insert_observed_mz()
: ProcessData
- insertCluster_()
: HierarchicalClustering< PointRef >
- insertHit()
: PeptideIdentification
, ProteinIdentification
- insertIndistinguishableProteins()
: ProteinIdentification
- insertmarker()
: MarkerMower
- insertNewVertex_()
: TOPPASBase
- insertNewVertexInCenter_()
: TOPPASBase
- insertNotification()
: LogStream
- insertPair()
: ROCCurve
- insertPoint()
: HierarchicalClustering< PointRef >
- insertProteinGroup()
: ProteinIdentification
- Inside
: DRange< D >
- inside_
: LinearInterpolation< Key, Value >
- inside_0_
: BilinearInterpolation< Key, Value >
- inside_1_
: BilinearInterpolation< Key, Value >
- insideBand_()
: MapAlignmentAlgorithmSpectrumAlignment
- InspectInfile()
: InspectInfile
- InspectOutfile()
: InspectOutfile
- instance()
: SuperHirnParameters
- instance_
: LogConfigHandler
, SuperHirnParameters
, Factory< FactoryProduct >
, SingletonRegistry
- instance_number_
: TOPPBase
- instance_ptr_
: Factory< FactoryProduct >
- institution_
: ContactPerson
, ContactPersonVisualizer
- Instrument
: TargetedExperiment
, Instrument
- instrument_
: InspectInfile
, MascotInfile
, ExperimentalSettings
, HPLC
- instrument_analyzer
: MzTabUnitIdMetaData
- instrument_detector
: MzTabUnitIdMetaData
- instrument_name
: MzTabUnitIdMetaData
- instrument_ref
: Configuration
- instrument_settings_
: ChromatogramSettings
, SpectrumSettings
- instrument_source
: MzTabUnitIdMetaData
- instruments_
: TargetedExperiment
, MzMLHandler< MapType >
- InstrumentSettings()
: InstrumentSettings
- instrumentsettings_polarity_
: InstrumentSettingsVisualizer
- instrumentsettings_scan_mode_
: InstrumentSettingsVisualizer
- InstrumentSettingsVisualizer()
: InstrumentSettingsVisualizer
- InstrumentVisualizer()
: InstrumentVisualizer
- InsufficientInput()
: ClusterFunctor::InsufficientInput
- INT
: PILISCrossValidation::Option
, ParameterInformation
, ListEditor
- int_
: PrecursorVisualizer
- int_32_bit_
: PeakFileOptions
- int_coef
: ConfidenceScoring
- int_field_
: CachedmzML
- INT_LIST
: DataValue
- int_list_
: DataValue
- int_max
: PILISCrossValidation::Option
- int_min
: PILISCrossValidation::Option
- int_range_
: RangeManager< D >
- int_scale_
: Spectrum3DOpenGLCanvas
- int_stepsize
: PILISCrossValidation::Option
- INT_VALUE
: DataValue
- INTEGER
: LPWrapper
- integer_data_arrays_
: MSChromatogram< PeakT >
, MSSpectrum< PeakT >
- integer_decomposer_type
: RealMassDecomposer
- integer_value_type
: RealMassDecomposer
- IntegerDataArrays
: MSChromatogram< PeakT >
, MSSpectrum< PeakT >
- IntegerMassDecomposer()
: IntegerMassDecomposer< ValueType, DecompositionValueType >
- integrate_()
: GaussFilterAlgorithm
, ContinuousWaveletTransformNumIntegration
- intens
: FeatureFinderAlgorithmIsotopeWavelet< PeakType, FeatureType >::BoxElement
, cudaHelp
, IsotopeWaveletTransform< PeakType >::BoxElement
- intens_signals
: LCElutionPeak
- intensIsotopesStDev_
: ConsensusIsotopePattern
- intensities
: SILACPoint
- INTENSITY
: DataFilters
, MSPeak
- intensity
: ProteinResolver::PeptideEntry
, ProteinResolver::MSDGroup
, RawMSSignalSimulation::ContaminantInfo
, FeatureFinderAlgorithmPickedHelperStructs::Seed
, FeatureFinderAlgorithmPickedHelperStructs::TheoreticalIsotopePattern
, FeatureFinderAlgorithmPickedHelperStructs::IsotopePattern
, MS1Signal
- intensity_
: ChromatogramPeak
, Peak1D
, Peak2D
, CentroidPeak
- intensity_bin_boarders
: SvmTheoreticalSpectrumGenerator::SvmModelParameterSet
- intensity_bin_values
: SvmTheoreticalSpectrumGenerator::SvmModelParameterSet
- intensity_bins_
: FeatureFinderAlgorithmPicked< PeakType, FeatureType >
- intensity_button_group_
: IDEvaluationBase
, TOPPViewBase
- intensity_correlation
: SILACAnalyzer
- intensity_correlation_
: SILACFilter
- intensity_cutoff
: SILACAnalyzer
- intensity_cutoff_
: SILACFilter
, SILACFiltering
- intensity_mode_
: SpectrumCanvas
- intensity_mz_step_
: FeatureFinderAlgorithmPicked< PeakType, FeatureType >
- intensity_percentage_
: FeatureFinderAlgorithmPicked< PeakType, FeatureType >
- intensity_percentage_optional_
: FeatureFinderAlgorithmPicked< PeakType, FeatureType >
- intensity_range_
: FeatureFileOptions
, PeakFileOptions
- intensity_rt_step_
: FeatureFinderAlgorithmPicked< PeakType, FeatureType >
- intensity_scale_
: RawMSSignalSimulation
- intensity_scale_stddev_
: RawMSSignalSimulation
- intensity_threshold_
: FeatureFinderAlgorithmIsotopeWavelet< PeakType, FeatureType >
, SimpleExtender< PeakType, FeatureType >
- intensity_thresholds_
: FeatureFinderAlgorithmPicked< PeakType, FeatureType >
- intensity_type_
: FeatureFinderAlgorithmIsotopeWavelet< PeakType, FeatureType >
- intensityArea
: MS2Fragment
- IntensityBalanceFilter()
: IntensityBalanceFilter
- intensityBinMap
: BackgroundControl
- intensityCV_
: SuperHirnParameters
- intensityFilter_()
: SILACFilter
- intensityFilterPassed_()
: FeatureDeconvolution
- intensityFloor_
: SuperHirnParameters
- intensityHist_
: BackgroundIntensityBin
- IntensityIterator()
: IntensityIterator< FeaFiModuleType >
- IntensityIteratorWrapper()
: IntensityIteratorWrapper< IteratorT >
- IntensityLess()
: IntensityLess< FeaFiModuleType >
- IntensityMap
: SvmTheoreticalSpectrumGenerator
- intensityMap_
: BackgroundIntensityBin
- intensityModeChange_()
: Spectrum1DCanvas
, Spectrum2DCanvas
, SpectrumCanvas
, SpectrumWidget
- IntensityModes
: SpectrumCanvas
- IntensityRangeType
: RangeManager< D >
- intensityScore_()
: FeatureFinderAlgorithmPicked< PeakType, FeatureType >
- intensityThreshold_
: SuperHirnParameters
- IntensityThresholdCalculation
: SignalToNoiseEstimatorMeanIterative< Container >
, SignalToNoiseEstimatorMedian< Container >
- IntensityType
: FeaFiModule< PeakType, FeatureType >
, LmaIsotopeModel
, Peak1D
, ProteinInference
, ChromatogramPeak
, MSExperiment< PeakT, ChromatogramPeakT >
, Peak2D
, BaseModel< D >
, ExtendedIsotopeModel
, FeatureFinderAlgorithm< PeakType, FeatureType >
, InterpolationModel
, IsotopeModel
, ModelFitter< PeakType, FeatureType >
, ProductModel< 2 >
, SimpleExtender< PeakType, FeatureType >
, Annotation1DItem
- intenstype_
: IsotopeWaveletTransform< PeakType >
- intercept
: ConfidenceScoring
- intercept_
: LinearRegression
, TransformationModelLinear
- intermediate_products_
: ReactionMonitoringTransition
- Internal
: Residue
- Internal::ClassTest::isFileSimilar
: FuzzyStringComparator
- Internal::ClassTest::testStringSimilar
: FuzzyStringComparator
- INTERNAL_ERROR
: TOPPBase
- internal_formula_
: Residue
- InternalCalibration()
: InternalCalibration
- interp_
: TransformationModelInterpolated
- interpol_xs_
: IsotopeWaveletTransform< PeakType >
- interpol_ys_
: IsotopeWaveletTransform< PeakType >
- interpolatedColorAt()
: MultiGradient
- interpolation_
: InterpolationModel
- interpolation_mode_
: MultiGradient
- interpolation_step_
: InterpolationModel
, Fitter1D
- interpolation_step_mz_
: ModelFitter< PeakType, FeatureType >
- interpolation_step_rt_
: ModelFitter< PeakType, FeatureType >
- InterpolationMode
: MultiGradient
- InterpolationModel
: GaussModel
, InterpolationModel
- interpretation_list_
: TraMLProduct
, IncludeExcludeTarget
- intersection_()
: FeatureFinderAlgorithmPicked< PeakType, FeatureType >
- intersects()
: DBoundingBox< D >
, DRange< D >
- Intersects
: DRange< D >
- IntList()
: IntList
- intlist
: ParamXMLHandler
- IntList()
: IntList
- INTLIST
: ParameterInformation
- ints_32
: MzMLHandler< MapType >::BinaryData
- ints_64
: MzMLHandler< MapType >::BinaryData
- inv_table_steps_
: IsotopeWavelet
- INVALID
: UniqueIdInterface
- invalidate_()
: HistogramWidget
- InvalidIterator()
: InvalidIterator
- InvalidParameter()
: InvalidParameter
- InvalidQuery()
: DBConnection::InvalidQuery
- InvalidRange()
: InvalidRange
- InvalidSize()
: InvalidSize
- InvalidValue()
: InvalidValue
- inventory_
: Factory< FactoryProduct >
, SingletonRegistry
- invert()
: TransformationDescription
, TransformationModelLinear
- invertRecylingMode()
: TOPPASToolVertex
, TOPPASVertex
- IOException()
: IOException
- IOInfo()
: TOPPASToolVertex::IOInfo
- ion_cutoff_percentage_
: SequestInfile
- ion_detectors_
: Instrument
- ion_mass_tolerance_
: MascotInfile
- ion_mode_
: AccurateMassSearchEngine
- ion_optics_
: Instrument
, InstrumentVisualizer
- ion_series_weights_
: SequestInfile
- ion_sources_
: Instrument
- ion_types
: SvmTheoreticalSpectrumGenerator::SvmModelParameterSet
- IonDetector()
: IonDetector
- IonDetectorVisualizer()
: IonDetectorVisualizer
- ionization_method_
: IonSource
, IonSourceVisualizer
- ionization_type_
: IonizationSimulation
- IONIZATIONMETHOD
: RawMSSignalSimulation
- IonizationMethod
: IonSource
- IonizationSimulation()
: IonizationSimulation
- IonizationType
: IonizationSimulation
- ionize()
: IonizationSimulation
- ionizeEsi_()
: IonizationSimulation
- ionizeMaldi_()
: IonizationSimulation
- IONMETHODNULL
: IonSource
- IonOpticsType
: Instrument
- IonScore
: CompNovoIdentification
, CompNovoIdentificationBase
, CompNovoIdentificationCID
, CompNovoIonScoringCID
, CompNovoIonScoringBase::IonScore
, DeNovoIonScoring::IonScore
, CompNovoIonScoring
, DeNovoIonScoring::IonScore
- IonSeries
: MRMDecoy
- IonSeriesMapType
: MRMDecoy
- IonSource()
: IonSource
- IonSourceVisualizer()
: IonSourceVisualizer
- IONSTORAGE
: MassAnalyzer
- IONTOPHOTONDETECTOR
: IonDetector
- IonType
: SvmTheoreticalSpectrumGeneratorTrainer
, SvmTheoreticalSpectrumGenerator::IonType
- IOT_FILE
: TOPPASToolVertex::IOInfo
- IOT_LIST
: TOPPASToolVertex::IOInfo
- IOType
: TOPPASToolVertex::IOInfo
- IPS
: PrecursorIonSelection
- is_absdiff_small_
: FuzzyStringComparator
- is_active_
: ChargePair
, DataFilters
- is_at_end_
: EdwardsLippertIterator
, TrypticIterator
, FastaIterator
- is_decoy_
: PeptideEvidence
- is_description_
: XTandemXMLFile
- is_end_
: AreaIterator< ValueT, ReferenceT, PointerT, SpectrumIteratorT, PeakIteratorT >
- is_internal
: ToolDescriptionInternal
- is_inverse_orientation_
: AxisWidget
- is_isotope_1_mono
: CompNovoIonScoringBase::IonScore
- is_log_
: AxisWidget
- is_modified_
: Residue
- is_ms1_shown_
: SpectraIdentificationViewWidget
- is_number
: FuzzyStringComparator::StreamElement_
- is_repeatable_
: CVMappingTerm
- is_result_valid_
: SignalToNoiseEstimator< Container >
- is_running_
: StopWatch
- is_space
: FuzzyStringComparator::StreamElement_
- is_status_success_
: FuzzyStringComparator
- is_swapped_
: Spectrum1DCanvas
- isActive()
: ChargePair
, DataFilters
- isAtEnd()
: EdwardsLippertIterator
, PepIterator
, TrypticIterator
, FastaIteratorIntern
, FastaIterator
- isCharged()
: EmpiricalFormula
- isChildOf()
: ControlledVocabulary
- isCleavageSite_()
: EnzymaticDigestion
- isCompatible()
: ModificationDefinitionsSet
- isConflicting()
: Compomer
- isConnected()
: DBConnection
- isConsensusFeatureVisible_()
: Spectrum2DCanvas
- isContained()
: BaseModel< D >
- isCutoffEnabled()
: TOPPViewOpenDialog
- isd_group
: ProteinResolver::PeptideEntry
, ProteinResolver::ProteinEntry
, ProteinResolver::MSDGroup
- isDigestingEnd()
: EdwardsLippertIterator
, SuffixArrayTrypticSeqan
, EdwardsLippertIteratorTryptic
, SuffixArray
, SuffixArraySeqan
, SuffixArrayTrypticCompressed
, TrypticIterator
- isDirectory()
: File
- isDryRun()
: TOPPASScene
- isds
: ProteinResolver::ResolverResult
- isEdgeAllowed_()
: TOPPASScene
- isEditable()
: MetaDataBrowser
, BaseVisualizerGUI
- isEmpty()
: DataValue
, DBoundingBox< D >
, EmpiricalFormula
, DRange< D >
- IsEmptySpectrum()
: IsEmptySpectrum< SpectrumType >
- isFeatureValid_()
: IonizationSimulation
- isFinished()
: TOPPASVertex
- isFixedModification()
: ModificationDefinition
- isHidden()
: HMMState
- isHigherScoreBetter()
: PeptideIdentification
, ProteinIdentification
- ISI
: IonSource
- isIdentityCorrectionMatrix_()
: ItraqQuantifier
- isIdentityMatrix_()
: IsobaricIsotopeCorrector
- isInCache_()
: LogStreamBuf
- IsInCollisionEnergyRange()
: IsInCollisionEnergyRange< SpectrumType >
- isInf()
: MzTabNullNaNAndInfAbleInterface
, MzTabNullNaNAndInfAbleBase
- IsInIsolationWindowSizeRange()
: IsInIsolationWindowSizeRange< SpectrumType >
- isInitIsotopeDist()
: SuperHirnParameters
- isInResidueSet()
: Residue
- isInSpectrum_()
: EdwardsLippertIterator
- isIntersected()
: DRange< D >
- isInvalid()
: QTCluster
- isInvertible_()
: IsobaricIsotopeCorrector
- isLegalIsotopePattern2_()
: FeatureFindingMetabo
- isLegalIsotopePattern_()
: FeatureFindingMetabo
- isLegendShown()
: Spectrum3DCanvas
, AxisWidget
, SpectrumWidget
, Spectrum3DWidget
- isLogModelEnabled()
: EnzymaticDigestion
- isLogScale()
: AxisWidget
- isMapConsistent()
: ConsensusMap
- isMatch_()
: IDMapper
- isMetaEmpty()
: MetaInfoInterface
- isModified()
: AASequence
, Residue
, ParamEditor
, AASequence
- isMzToXAxis()
: SpectrumCanvas
- isNaN()
: MzTabNullNaNAndInfAbleBase
, MzTabNullNaNAndInfAbleInterface
- isNull()
: MzTabParameter
, MzTabNullAbleInterface
, MzTabNullAbleBase
, MzTabDoubleList
, MzTabStringList
, MzTabModificationList
, MzTabModification
, MzTabSpectraRef
, MzTabString
, MzTabParameterList
, MzTabNullNaNAndInfAbleBase
- iso_
: MassAnalyzerVisualizer
- iso_map_
: TwoDOptimization
- iso_map_iter
: TwoDOptimization::Data
- iso_number_ms2_negative
: ItraqQuantifier::ItraqQuantifierStats
, IsobaricQuantifierStatistics
- iso_number_reporter_different
: ItraqQuantifier::ItraqQuantifierStats
, IsobaricQuantifierStatistics
- iso_number_reporter_negative
: ItraqQuantifier::ItraqQuantifierStats
, IsobaricQuantifierStatistics
- iso_pattern_
: FeatureHypothesis
- iso_similarity_
: AccurateMassSearchEngine
- iso_solution_different_intensity
: ItraqQuantifier::ItraqQuantifierStats
, IsobaricQuantifierStatistics
- iso_stdev_first_
: ModelFitter< PeakType, FeatureType >
- iso_stdev_last_
: ModelFitter< PeakType, FeatureType >
- iso_stdev_stepsize_
: ModelFitter< PeakType, FeatureType >
- iso_total_intensity_negative
: IsobaricQuantifierStatistics
, ItraqQuantifier::ItraqQuantifierStats
- IsobaricChannelExtractor()
: IsobaricChannelExtractor
- IsobaricChannelInformation()
: IsobaricQuantitationMethod::IsobaricChannelInformation
- IsobaricChannelList
: IsobaricQuantitationMethod
- IsobaricIsotopeCorrector()
: IsobaricIsotopeCorrector
- IsobaricNormalizer()
: IsobaricNormalizer
- IsobaricQuantifier()
: IsobaricQuantifier
- IsobaricQuantifierStatistics()
: IsobaricQuantifierStatistics
- IsobaricQuantitationMethod()
: IsobaricQuantitationMethod
- isolation_width_
: MassAnalyzer
- ISOPEAKS
: MSPeak
- isOpen()
: GzipIfstream
, Bzip2Ifstream
- isOpenMSDataPath_()
: File
- isotope_correction_enabled_
: IsobaricQuantifier
- isotope_corrections_
: ITRAQLabeler
, ItraqQuantifier
- isotope_correlation
: OpenSwath_Scores
- isotope_distance
: LmaIsotopeFitter1D::Data
- isotope_distance_
: LmaIsotopeFitter1D
, SILACFilter
, LmaIsotopeModel
, ExtendedIsotopeModel
, IsotopeModel
- isotope_distribution_
: IsotopeModel
, SILACFilter
- isotope_distributions_
: CompNovoIdentificationBase
, CompNovoIonScoringBase
, IsotopeDistributionCache
, FeatureFinderAlgorithmPicked< PeakType, FeatureType >
- isotope_filt_svm_
: FeatureFindingMetabo
- isotope_lorentz_fwhm_
: IsotopeModel
- isotope_model_
: FeatureFindingMetabo
- isotope_overlap
: OpenSwath_Scores
- isotope_stdev_
: LmaIsotopeModel
, ModelFitter< PeakType, FeatureType >
, IsotopeModel
, ExtendedIsotopeFitter1D
, LmaIsotopeFitter1D
, IsotopeFitter1D
, ExtendedIsotopeModel
- IsotopeCluster()
: IsotopeCluster
- ISOTOPECORRECTIONS_EIGHTPLEX
: ItraqConstants
- ISOTOPECORRECTIONS_FOURPLEX
: ItraqConstants
- ISOTOPECORRECTIONS_TMT_SIXPLEX
: ItraqConstants
- IsotopeDiffFilter()
: IsotopeDiffFilter
- IsotopeDistribution()
: IsotopeDistribution
- IsotopeDistributionCache()
: IsotopeDistributionCache
- IsotopeFitter1D()
: IsotopeFitter1D
- IsotopeMarker()
: IsotopeMarker
- IsotopeMatrices
: ItraqConstants
, ItraqQuantifier
, ITRAQLabeler
- IsotopeModel()
: IsotopeModel
- IsotopePattern()
: FeatureFinderAlgorithmPickedHelperStructs::IsotopePattern
, FeatureFinderAlgorithmPicked< PeakType, FeatureType >
- isotopePattern
: LCElutionPeak
- isotopes_
: IMSElement
, Element
- isotopes_exact
: LmaIsotopeFitter1D::Data
- isotopes_exact_
: LmaIsotopeFitter1D
- isotopes_per_peptide
: SILACPoint
- isotopes_per_peptide_
: SILACFilter
- isotopes_per_peptide_max
: SILACAnalyzer
- isotopes_per_peptide_min
: SILACAnalyzer
- isotopes_sim_score_
: AccurateMassSearchResult
- isotopes_stdev
: LmaIsotopeFitter1D::Data
- isotopes_type
: IMSElement
- isotopeScore_()
: FeatureFinderAlgorithmPicked< PeakType, FeatureType >
- isotopesTrace_
: ConsensusIsotopePattern
- IsotopeType
: CompNovoIdentificationCID
, CompNovoIonScoringBase
, CompNovoIonScoringCID
, CompNovoIonScoring
, CompNovoIdentification
- IsotopeVariant
: Tagging
- IsotopeWavelet()
: IsotopeWavelet
- IsotopeWaveletParallelFor()
: IsotopeWaveletParallelFor< PeakType, FeatureType >
- IsotopeWaveletTransform()
: IsotopeWaveletTransform< PeakType >
, IsotopeWaveletTransform< PeakType >::TransSpectrum
, IsotopeWaveletTransform< PeakType >
- ISOTOPIC_LABEL
: ResidueModification
- isotopicPeaks_
: DeconvPeak
- isotopIdx_
: CentroidPeak
- isPipelineRunning()
: TOPPASScene
- isProteinInMinimalList()
: PSProteinInference
- isReachable()
: TOPPASVertex
- isRecyclingEnabled()
: TOPPASVertex
- isRefining()
: XTandemInfile
- isRegistered()
: SingletonRegistry
, Factory< FactoryProduct >
- isRTColumnOn()
: RTSimulation
- isRunning()
: StopWatch
- isSameHandle()
: MapAlignmentEvaluationAlgorithm
- isSelected()
: Annotation1DItem
- isSemanticallyValid()
: MzMLFile
, TraMLFile
, MzQuantMLFile
, MzIdentMLFile
, MzDataFile
- isSILACPattern_()
: SILACFilter
- isSILACPatternPicked_()
: SILACFilter
- isSingleAdduct()
: Compomer
- isSorted()
: MSExperiment< PeakT, ChromatogramPeakT >
, MSSpectrum< PeakT >
, MSChromatogram< PeakT >
- isSupported()
: FileHandler
- isTooFarFromCentroid_()
: SimpleExtender< PeakType, FeatureType >
- isToolReady()
: TOPPASToolVertex
- isTopoSortMarked()
: TOPPASVertex
- isUpstreamFinished()
: TOPPASVertex
- isValid()
: PeakIndex
, Gradient
, FeatureFinderAlgorithmPickedHelperStructs::MassTraces< PeakType >
, UniqueIdInterface
, Param::ParamEntry
, XMLFile
, XMLValidator
, AASequence
, MzMLFile
, FeatureFinderAlgorithmPickedHelperStructs::MassTrace< PeakType >
- isValidPrecursor_()
: IsobaricChannelExtractor
- isValidProduct()
: EnzymaticDigestion
- IsZoomSpectrum()
: IsZoomSpectrum< SpectrumType >
- IT
: MassAnalyzer
- it_
: ConsensusXMLFile
, SuffixArraySeqan
, FastaIteratorIntern
- itemChanged()
: TheoreticalSpectrumGenerationDialog
- itemClicked()
: TOPPASScene
- itemDragged()
: TOPPASVertex
- itemenclosed_
: CsvFile
- itemReleased()
: TOPPASScene
- itemseperator_
: CsvFile
- ITERATION_EXCEEDED
: NonNegativeLeastSquaresSolver
- Iterator
: IsotopeDistribution
, FeatureMap< FeatureT >
, DPosition< D, TCoordinateType >
, String
- iterator
: IMSAlphabet
- Iterator()
: AASequence::Iterator
, MSExperiment< PeakT, ChromatogramPeakT >
- iterator
: SparseVector< Value >
- Iterator()
: AASequence::Iterator
, ConstRefVector< ContainerT >
- iterator
: ConsensusFeature
- Iterator
: MSSpectrum< PeakT >
- iterator
: HashGrid< Cluster >
- Iterator
: Annotations1DContainer
, HashGrid< Cluster >::Iterator
, Matrix< Value >
, SparseVector< Value >
- iterator
: ConstRefVector< ContainerT >
- Iterator()
: AASequence::Iterator
, Map< Key, T >
- iterator
: Matrix< Value >
- Iterator
: StringList
- iterator
: MSExperiment< PeakT, ChromatogramPeakT >
, DPosition< D, TCoordinateType >
- Iterator
: ConsensusMap
- iterator
: IsotopeDistribution
, MassTrace
- Iterator()
: HashGrid< Cluster >::Iterator
, MSChromatogram< PeakT >
- iterator_category
: ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT >
, AASequence::ConstIterator
- iteratorRange2Arrays_()
: LinearRegression
- iteratorRange3Arrays_()
: LinearRegression
- iteratorsSet()
: PeakShape
- itraq_type_
: ItraqQuantifier
, ItraqChannelExtractor
, ITRAQLabeler
- ITRAQ_TYPES
: ItraqConstants
- ItraqChannelExtractor()
: ItraqChannelExtractor
- ItraqEightPlexQuantitationMethod()
: ItraqEightPlexQuantitationMethod
- ItraqFourPlexQuantitationMethod()
: ItraqFourPlexQuantitationMethod
- ITRAQLabeler()
: ITRAQLabeler
- ItraqQuantifier()
: ItraqQuantifier
- ItraqQuantifierStats()
: ItraqQuantifier::ItraqQuantifierStats
- iwts_
: IsotopeWaveletParallelFor< PeakType, FeatureType >