Here is a list of all class members with links to the classes they belong to:
- r -
- r_r_obj_
: MzQuantMLHandler
- r_rtemp_
: MzQuantMLHandler
- r_squared_
: LinearRegression
- r_value
: PeakShape
- RADIALEJECTIONLINEARIONTRAP
: MassAnalyzer
- radius
: LocalLinearMap::LLMParam
- radius_
: PeakPickerCWT
- rand_gen_
: ConfidenceScoring
- random()
: String
, StringUtils
- range_x_
: ClusteringGrid
- range_y_
: ClusteringGrid
- RangeManager()
: RangeManager< D >
- RangeManagerType
: FeatureMap
, MSExperiment< PeakT, ChromatogramPeakT >
, ConsensusMap
- rank_
: IdentificationHit
, PeptideHit
, ProteinHit
- rank_sp_weights_
: SequestOutfile
- ranked_()
: ConsensusID
- ransac()
: MRMRTNormalizer
- raster()
: LinearResampler
, LinearResamplerAlign
- raster_align()
: LinearResamplerAlign
- raster_interpolate()
: LinearResamplerAlign
- rasterExperiment()
: LinearResampler
- Ratio()
: ConsensusFeature::Ratio
- ratio_max_
: FuzzyStringComparator
- ratio_max_allowed_
: FuzzyStringComparator
- ratio_value_
: ConsensusFeature::Ratio
- ratios_
: ConsensusFeature
- raw_data_first
: TwoDOptimization::Data
- raw_data_points_
: MultiplexFilterResultPeak
- raw_files_
: MSQuantifications::Assay
- raw_rt_score
: OpenSwath_Scores
- raw_spec_
: BinnedSpectrum
- raw_spec_names
: LCMS
- RawData()
: RawData
- RAWDATA
: SpectrumSettings
- RawDataArrayType
: EGHFitter1D::Data
, EmgFitter1D::Data
, Fitter1D
- RawDataVector
: OptimizePeakDeconvolution
, OptimizePick
- rawIsotopes_
: ConsensusIsotopePattern
- RawMSSignalSimulation()
: RawMSSignalSimulation
- RawTandemMSSignalSimulation()
: RawTandemMSSignalSimulation
- rbegin()
: MassTrace
, ConstRefVector< ContainerT >
, SparseVector< Value >
, ConsensusFeature
, MassTrace
- rdbuf()
: LogStream
- reachable_
: TOPPASVertex
- ReactionMonitoringTransition()
: ReactionMonitoringTransition
- read()
: Bzip2Ifstream
, GzipIfstream
- readable()
: File
- readBytes()
: Bzip2InputStream
, GzipInputStream
- readChromatogram_()
: CachedmzML
- readChromatogramFast()
: CachedmzML
- readConsoleSize_()
: ConsoleUtils
- readFromFile()
: PILISModel
- readFromFile_()
: ElementDB
- readFromOBOFile()
: ModificationsDB
- readFromUnimodXMLFile()
: ModificationsDB
- readMappingFile_()
: OMSSAXMLFile
- readMemdump()
: CachedmzML
- readMzIdentMLFile()
: MzIdentMLDOMHandler
- readNextLine_()
: FuzzyStringComparator
- readOutHeader()
: InspectOutfile
, SequestOutfile
- readProblem()
: LPWrapper
- readResiduesFromFile_()
: ResidueDB
- readResponseHeader()
: MascotRemoteQuery
- readRTMZCharge_()
: PepXMLFile
- readSpectrum_()
: CachedmzML
- readSpectrumFast()
: CachedmzML
- readSwathWindows()
: SwathWindowLoader
- readUnstructuredTSVInput_()
: TransitionTSVReader
- readyReadSlot()
: MascotRemoteQuery
- reagent_name_
: Modification
- real_2D_
: TwoDOptimization
- real_RT_votes_cutoff_
: FeatureFinderAlgorithmIsotopeWavelet
- RealMassDecomposer()
: RealMassDecomposer
- RealType
: AsymmetricStatistics< RealT >
, BasicStatistics< RealT >
- recalculate_peaks_
: MRMTransitionGroupPicker
- recalculate_peaks_max_z_
: MRMTransitionGroupPicker
- recalculateAxes()
: SpectrumCanvas
- recalculateAxes_()
: Spectrum1DWidget
, Spectrum2DWidget
, Spectrum3DWidget
, SpectrumWidget
- recalculateCurrentLayerDotGradient()
: Spectrum2DCanvas
- recalculateDotGradient_()
: Spectrum2DCanvas
, Spectrum3DOpenGLCanvas
- recalculatePeakBorders_()
: MRMTransitionGroupPicker
- recalculateRanges_()
: SpectrumCanvas
- recalculateSnapFactor_()
: Spectrum1DCanvas
, Spectrum2DCanvas
, SpectrumCanvas
- recent_actions_
: TOPPViewBase
- recent_files_
: TOPPViewBase
- recomputeConsensus_()
: BaseLabeler
- reconstructChannelInfo_()
: ItraqQuantifier
- record_length_
: InspectOutfile
- Rectangle
: GridBasedCluster
, GridBasedClustering< Metric >
- recurseAndGenerateVariableModifiedPeptides_()
: ModifiedPeptideGenerator
- recursion_depth_
: ProgressLogger
- reduce()
: DistanceMatrix< Value >
- reduce_by_factor_
: ParentPeakMower
- reducePermuts_()
: CompNovoIdentification
, CompNovoIdentificationCID
- reestimate_mt_sd_
: MassTraceDetection
- ref_
: PrecisionWrapper< FloatingPointType >
- ref_intens
: IsotopeWaveletTransform< PeakType >::BoxElement
- ref_map_id_
: IsobaricNormalizer
- ref_param_
: MzMLHandler< MapType >
- reference
: AASequence::ConstIterator
, AASequence::Iterator
, ConstRefVector< ContainerT >::ConstRefVectorConstIterator< ValueT >
, ConstRefVector< ContainerT >::ConstRefVectorIterator< ValueT >
, ConstRefVector< ContainerT >
, DPosition< D, TCoordinateType >
, Matrix< Value >
, SparseVector< Value >
, IntensityIteratorWrapper< IteratorT >
, AreaIterator< ValueT, ReferenceT, PointerT, SpectrumIteratorT, PeakIteratorT >
- Reference
: Matrix< Value >
, FeatureMap
- reference_
: MapAlignmentAlgorithmIdentification
, MapAlignmentAlgorithmPoseClustering
, IsotopeWaveletTransform< PeakType >::TransSpectrum
- reference_channel_
: ItraqEightPlexQuantitationMethod
, ItraqFourPlexQuantitationMethod
, TMTSixPlexQuantitationMethod
, TMTTenPlexQuantitationMethod
- reference_channel_name_
: IsobaricNormalizer
- reference_index_
: MapAlignmentAlgorithmIdentification
- refine_
: XTandemInfile
- refine_max_valid_evalue_
: XTandemInfile
- REFLECTRON
: Instrument
- reflectron_state_
: MassAnalyzer
, MassAnalyzerVisualizer
- ReflectronState
: MassAnalyzer
- REFLSTATENULL
: MassAnalyzer
- refreshModificationList()
: ModifierRep
- refreshParameters()
: TOPPASBase
, TOPPASScene
, TOPPASToolVertex
- refreshPipelineParameters()
: TOPPASBase
- RefreshStatus
: TOPPASScene
- reg_models
: SvmTheoreticalSpectrumGenerator::SvmModelParameterSet
- region_rt_span_
: EGHTraceFitter
, GaussTraceFitter
- registerAt()
: LogStreamNotifier
- registerChannelsInOutputMap_()
: IsobaricChannelExtractor
- registerChildren()
: BaseGroupFinder
, BaseSuperimposer
, FeatureGroupingAlgorithm
, MapAlignmentAlgorithm
, MapAlignmentEvaluationAlgorithm
, PepIterator
, ClusterFunctor
, BinnedSpectrumCompareFunctor
, PeakSpectrumCompareFunctor
, ProgressLogger::ProgressLoggerImpl
, FilterFunctor
, BaseLabeler
, BaseModel< D >
, FeatureFinderAlgorithm
, Fitter1D
, BaseModel< D >
- registerDoubleList_()
: TOPPBase
- registerDoubleOption_()
: TOPPBase
- registered_at_
: LogStreamNotifier
- registeredProducts()
: Factory< FactoryProduct >
- registerExperiment()
: MSQuantifications
- registerFactory()
: SingletonRegistry
- registerFlag_()
: TOPPBase
- registerFullParam_()
: TOPPBase
- registerInputFile_()
: TOPPBase
- registerInputFileList_()
: TOPPBase
- registerIntList_()
: TOPPBase
- registerIntOption_()
: TOPPBase
- registerName()
: MetaInfoRegistry
- registerOptionsAndFlags_()
: TOPPBase
, TOPPRNPxl
, SimpleSearchEngine
- registerOutputFile_()
: TOPPBase
- registerOutputFileList_()
: TOPPBase
- registerParamSubsectionsAsTOPPSubsections_()
: TOPPBase
- registerProduct()
: Factory< FactoryProduct >
- registerProtein_()
: ProtXMLFile
- registerRun()
: QcMLFile
- registerSet()
: QcMLFile
- registerStream()
: StreamHandler
- registerStringList_()
: TOPPBase
- registerStringOption_()
: TOPPBase
- registerSubsection_()
: TOPPBase
- registerTOPPSubsection_()
: TOPPBase
- registry()
: MetaInfo
- registry_
: MetaInfo
, MultiplexFiltering
- RegularSwathFileConsumer()
: RegularSwathFileConsumer
- reindexed_peptides
: ProteinResolver::ResolverResult
- reindexed_proteins
: ProteinResolver::ResolverResult
- reindexingNodes_()
: ProteinResolver
- rel_prec_error
: RNPxlReportRow
- released()
: TOPPASVertex
- relevant
: FeatureDistance::DistanceParams_
- reliability
: MzTabProteinSectionRow
, MzTabPeptideSectionRow
, MzTabPSMSectionRow
, MzTabSmallMoleculeSectionRow
- remove()
: LogStream
, Param
, String
, StringUtils
, DataFilters
, File
, MultiGradient
- remove_()
: MetaInfoVisualizer
- remove_background_peak()
: LCElutionPeak
- remove_chromatogram_flag()
: LayerData
- remove_feature()
: LCMS
- remove_feature_by_ID()
: LCMS
- remove_feature_from_list()
: LCMS
- remove_low_intensity_quantifications_
: IsobaricChannelExtractor
- remove_overlapping_
: PeakPickerMRM
- remove_overlapping_features()
: MRMTransitionGroupPicker
- remove_precursor_near_peaks_
: SequestInfile
- remove_raw_spec_name()
: LCMS
- removeAdduct()
: Compomer
- removeAll()
: Param
, TOPPASInputFilesDialog
- removeAllAttachments()
: QcMLFile
- removeAllClusters()
: ClusteringGrid
- removeAllMS2Information()
: SHFeature
- removeAttachment()
: QcMLFile
- removebutton_
: GradientVisualizer
- removeCluster()
: ClusteringGrid
- removeCurrentRow()
: ListTable
- removeData_()
: GradientVisualizer
- removeDirRecursively()
: File
- removeExtension()
: File
- removeFile()
: FileWatcher
- removeHostName_()
: MascotRemoteQuery
- removeId()
: EnhancedTabBar
, TOPPASTabBar
- removeInEdge()
: TOPPASVertex
- removeLayer()
: Spectrum1DCanvas
, Spectrum2DCanvas
, Spectrum3DCanvas
, SpectrumCanvas
- removeMetaValue()
: MetaInfoInterface
- removeMS2Feature()
: SHFeature
- removeNoise()
: CentroidData
- removeOutEdge()
: TOPPASVertex
- removeOutlierFragments()
: ClusteredMS2ConsensusSpectrum
- removeOutliersIterative()
: MRMRTNormalizer
- removeOutliersRANSAC()
: MRMRTNormalizer
- removeOverlappingPeaks_()
: PeakPickerMRM
- removeQualityParameter()
: QcMLFile
- removeRowButton_
: ListEditor
- removeSelected()
: TOPPASInputFilesDialog
, TOPPASScene
- removeSelectedItems()
: Annotations1DContainer
- removeSmallClustersY()
: GridBasedClustering< Metric >
- removeTemporaryAnnotations_()
: TOPPViewIdentificationViewBehavior
- removeTheoreticalSpectrumLayer_()
: TOPPViewIdentificationViewBehavior
- removeTreatment()
: Sample
- removeUnreferencedPeptideHits()
: IDFilter
- removeUnreferencedProteinHits()
: IDFilter
- removeValue()
: MetaInfo
- removeWhitespaces()
: String
, StringUtils
- removeZeroedElements_()
: EmpiricalFormula
- REMPI
: IonSource
- renameOutput_()
: TOPPASToolVertex
- rend()
: ConstRefVector< ContainerT >
, SparseVector< Value >
, ConsensusFeature
, MassTrace
- renderForImage()
: Spectrum1DWidget
- renormalize()
: IsotopeDistribution
- replace()
: DataFilters
- replaceCVTerm()
: CVTermList
- replaceCVTerms()
: TraMLProduct
, CVTermList
- replacement_
: SVOutStream
- report_mode_
: MetaboliteSpectralMatching
- report_summed_ints_
: FeatureFindingMetabo
- reported_mz_
: FeatureFinderAlgorithmPicked
- reporter_mass_shift_
: IsobaricChannelExtractor
- reportFailure_()
: FuzzyStringComparator
- reportSuccess_()
: FuzzyStringComparator
- requestClipboardContent()
: TOPPASScene
- requestVisibleArea1D()
: SpectraIdentificationViewWidget
- require_args_
: TOPPBase
- required
: ParameterInformation
- RequiredParameterNotGiven()
: RequiredParameterNotGiven
- requirement_level_
: CVMappingRule
- RequirementLevel
: CVMappingRule
- requires_login_
: MascotRemoteQuery
- rerunTOPPTool()
: TOPPViewBase
- res_
: IonDetectorVisualizer
, MassAnalyzerVisualizer
- res_base_
: RawMSSignalSimulation
- RES_CONSTANT
: RawMSSignalSimulation
- RES_LINEAR
: RawMSSignalSimulation
- res_method_
: MassAnalyzerVisualizer
- res_model_
: RawMSSignalSimulation
- RES_SQRT
: RawMSSignalSimulation
- res_type_
: MassAnalyzerVisualizer
- resample()
: ConsensusMapNormalizerAlgorithmQuantile
- resampleChromatogram_()
: MRMTransitionGroupPicker
- rescore()
: PrecursorIonSelection
- rescore_()
: PrecursorIonSelection
- reserve()
: ConstRefVector< ContainerT >
, MSExperiment< PeakT, ChromatogramPeakT >
- reserveSpaceChromatograms()
: MSExperiment< PeakT, ChromatogramPeakT >
- reserveSpaceSpectra()
: MSExperiment< PeakT, ChromatogramPeakT >
- RESERVOIR
: IonSource
- reset()
: StopWatch
, FuzzyStringComparator::StreamElement_
, IsobaricQuantifierStatistics
, PrecursorIonSelection
, XMLHandler
, MSExperiment< PeakT, ChromatogramPeakT >
, Histogram< ValueType, BinSizeType >
, TOPPASOutputFileListVertex
, TOPPASToolVertex
, TOPPASVertex
- resetAlignment()
: Spectrum1DCanvas
, Spectrum1DWidget
- resetDownstream()
: TOPPASScene
- resetErrors()
: XMLValidator
- resetMembers_()
: FeatureXMLFile
, ProtXMLFile
- resetPeakGroupIter()
: CentroidData
- resetProcessesQueue()
: TOPPASScene
- resetTranslation()
: Spectrum3DOpenGLCanvas
- resetZoom()
: IDEvaluationBase
, TOPPViewBase
, SpectrumCanvas
- residualOutlierCandidate()
: MRMRTNormalizer
- residue
: SvmTheoreticalSpectrumGenerator::IonType
- Residue()
: Residue
- residue_by_one_letter_code_
: ResidueDB
- residue_mod_names_
: ResidueDB
- residue_names_
: ResidueDB
- residue_sets_
: Residue
, ResidueDB
- residue_to_name_
: CompNovoIdentificationBase
- ResidueConstIterator
: ResidueDB
- ResidueDB()
: ResidueDB
- ResidueIterator
: ResidueDB
- ResidueModification()
: ResidueModification
- residues
: MzIdentMLDOMHandler::ModificationParam
- residues_
: ResidueDB
- residues_by_set_
: ResidueDB
- residues_in_upper_case_
: SequestInfile
- residues_table_row_type
: IntegerMassDecomposer< ValueType, DecompositionValueType >
- residues_table_type
: IntegerMassDecomposer< ValueType, DecompositionValueType >
- ResidueType
: Residue
- ResidueTypeToString_()
: SvmTheoreticalSpectrumGenerator
- resize()
: Matrix< Value >
, ConstRefVector< ContainerT >
, DistanceMatrix< Value >
, Matrix< Value >
, SparseVector< Value >
, MSExperiment< PeakT, ChromatogramPeakT >
- resizeEvent()
: HistogramWidget
, Spectrum3DCanvas
, SpectrumCanvas
, TOPPASWidget
- resizeGL()
: Spectrum3DOpenGLCanvas
- RESMETHNULL
: MassAnalyzer
- resolution_
: IonDetector
, MassAnalyzer
- resolution_method_
: MassAnalyzer
- resolution_type_
: MassAnalyzer
- ResolutionMethod
: MassAnalyzer
- RESOLUTIONMODEL
: RawMSSignalSimulation
- ResolutionType
: MassAnalyzer
- resolveAutoMode_()
: AccurateMassSearchEngine
- resolveConsensus()
: ProteinResolver
- resolveID()
: ProteinResolver
- resolveMixedSequenceGroups_()
: TransitionTSVReader
- resolver_result_
: ProteinResolver
- resolveUniqueIdConflicts()
: UniqueIdIndexer< RandomAccessContainer >
- restoreRotationAndZoom()
: Spectrum3DOpenGLCanvas
- restrictions
: ParamXMLHandler
- restrictions_
: ListEditorDelegate
- restrictions_index
: ParamXMLHandler
- restrictTransitions()
: MRMDecoy
- RESTYPENULL
: MassAnalyzer
- result_
: MultiplexFilterResult
- result_type
: mean_and_stddev
- result_windows_even
: SignalToNoiseEstimatorMedianRapid::NoiseEstimator
- result_windows_odd
: SignalToNoiseEstimatorMedianRapid::NoiseEstimator
- resume_source_
: TOPPASScene
- retention_
: EGHFitter1D
, EmgFitter1D
, EmgModel
- retention_time
: MzTabPeptideSectionRow
, MzTabPSMSectionRow
, MzTabSmallMoleculeSectionRow
- retention_time_
: MascotInfile
, MSSpectrum< PeakT >
- retention_time_window
: MzTabPeptideSectionRow
- RetentionTime()
: RetentionTime
, ReactionMonitoringTransition
, TargetedExperiment
, IncludeExcludeTarget
- retentionTimeInterpretation_
: TransitionTSVReader
- retrieveSwathMaps()
: FullSwathFileConsumer
- return_chromatogram()
: ChromatogramExtractor
- RETURN_STATUS
: NonNegativeLeastSquaresSolver
- reverse()
: StringUtils
, String
- reverse_
: IsZoomSpectrum< SpectrumType >
, InMzRange< PeakType >
, IsInCollisionEnergyRange< SpectrumType >
, HasPrecursorCharge< SpectrumType >
, InPrecursorMZRange< SpectrumType >
, InRTRange< SpectrumType >
, HasMetaValue< MetaContainer >
, IsEmptySpectrum< SpectrumType >
, HasScanMode< SpectrumType >
, HasScanPolarity< SpectrumType >
, HasActivationMethod< SpectrumType >
, InIntensityRange< PeakType >
, IsInIsolationWindowSizeRange< SpectrumType >
, InMSLevelRange< SpectrumType >
- reverse_iterator
: ConsensusFeature
, ConstRefVector< ContainerT >
, MassTrace
, SparseVector< Value >
, Matrix< Value >
- reverse_map_const_iterator
: SparseVector< Value >
- reverse_map_iterator
: SparseVector< Value >
- ReverseComparator()
: ReverseComparator< Cmp >
- reverseComparator()
: ReverseComparator< Cmp >
- ReverseIterator
: Matrix< Value >
, TextFile
, MSSpectrum< PeakT >
, MSChromatogram< PeakT >
, String
, FeatureMap
, ConstRefVector< ContainerT >
, Map< Key, T >
, SparseVector< Value >
, StringListUtils
, ConsensusMap
- reversePeptide()
: MRMDecoy
- rhop()
: SparseVector< Value >::SparseVectorConstReverseIterator
, SparseVector< Value >::SparseVectorReverseIterator
- RichPeak1D()
: RichPeak1D
- RichPeak2D()
: RichPeak2D
- RichPeakChromatogram
: MRMTransitionGroupPicker
, MRMFeatureFinderScoring
, PeakPickerMRM
- right
: PeakPickerCWT::PeakArea_
- RIGHT
: Compomer
, AxisPainter
- right_boundary
: PeakPickerMaxima::PeakCandidate
- right_child
: BinaryTreeNode
- right_endpoint_
: PeakShape
- right_iterator_set_
: PeakShape
- right_splitter_
: HistogramWidget
- right_width
: PeakShape
- right_width_
: PeakPickerMRM
- rightWidth
: PeakCandidate
- rip()
: IDRipper
- RNA
: RNPxlReportRow
- RNA_weight
: RNPxlReportRow
- rnd_gen_
: RawMSSignalSimulation
, RTSimulation
, IonizationSimulation
, RawTandemMSSignalSimulation
- rng_
: BaseLabeler
, UniqueIdGenerator
- ROCCurve()
: ROCCurve
- root_
: Param::ParamIterator
, Param
- round_based_mode_
: TOPPASMergerVertex
- round_counter_
: TOPPASVertex
- round_total_
: TOPPASVertex
- roundBasedMode()
: TOPPASMergerVertex
- rounding_errors_
: RealMassDecomposer
- RoundPackage
: TOPPASVertex
- RoundPackageConstIt
: TOPPASVertex
- RoundPackageIt
: TOPPASVertex
- RoundPackages
: TOPPASVertex
- row()
: Matrix< Value >
- row_
: QcMLFile
, BaseVisualizerGUI
- rowCount()
: CsvFile
- rowIndex()
: Matrix< Value >
- rownames_
: DataMatrix
- rows()
: Matrix< Value >
- rows_
: Matrix< Value >
- rsd_
: LinearRegression
- RT
: SpectrumMeta
, FeatureFinderAlgorithmIsotopeWavelet::BoxElement
, OSSpectrumMeta
, StablePairFinder
, QTClusterFinder
- rt
: RNPxlReportRow
- RT
: FeatureFinderAlgorithmMRM
, IsotopeWaveletTransform< PeakType >::BoxElement
, Peak2D
- rt
: Peptide
, LightPeptide
- rt_
: PepXMLFile
, PeptideIdentification
, MultiplexFilterResultPeak
- rt_bridge_
: InclusionExclusionList::WindowDistance_
- rt_calibrated
: TransitionTSVReader::TSVTransition
- rt_coef
: ConfidenceScoring
- rt_difference
: OpenSwath_Scores
- rt_end
: RawMSSignalSimulation::ContaminantInfo
, ChromatogramExtractorAlgorithm::ExtractionCoordinates
- rt_extraction_window
: OpenSwathWorkflow::ChromExtractParams
- rt_extraction_window_
: MRMFeatureFinderScoring
- RT_GAUSSIAN
: RawMSSignalSimulation
- RT_index
: IsotopeWaveletTransform< PeakType >::BoxElement
- RT_interleave_
: FeatureFinderAlgorithmIsotopeWavelet
- rt_label_
: TOPPViewBase
- rt_mapping_
: MascotXMLHandler
- rt_max_
: SpectraMerger::SpectraDistance_
- rt_minimum_
: MultiplexClustering
- rt_model_file_
: RTSimulation
- rt_norm_
: ConfidenceScoring
- rt_normalization_factor_
: MRMFeatureFinderScoring
, OpenSwathScoring
- rt_probability
: PSLPFormulation::IndexTriple
- rt_prot_map_
: PrecursorIonSelectionPreprocessing
- rt_range_
: FeatureFileOptions
, PeakFileOptions
- RT_RECTANGULAR
: RawMSSignalSimulation
- rt_sampling_rate_
: RTSimulation
- rt_scaling_
: MultiplexClustering
, MultiplexClustering::MultiplexDistance
- rt_set_
: MzMLHandler< MapType >
- rt_shift_
: Compomer
, Adduct
- rt_start
: RawMSSignalSimulation::ContaminantInfo
, ChromatogramExtractorAlgorithm::ExtractionCoordinates
- rt_tol_
: PepXMLFile
- rt_tolerance_
: IDMapper
- rt_trafo_
: ConfidenceScoring
- rt_typical_
: MultiplexClustering
- RT_votes_cutoff_
: FeatureFinderAlgorithmIsotopeWavelet
- RTBegin()
: MSExperiment< PeakT, ChromatogramPeakT >
, MSChromatogram< PeakT >
- RTEnd()
: MSChromatogram< PeakT >
, MSExperiment< PeakT, ChromatogramPeakT >
, MSChromatogram< PeakT >
, MSExperiment< PeakT, ChromatogramPeakT >
- RtIterator()
: RtIterator< FeaFiModuleType >
- RTMapping
: MascotXMLHandler
, MascotXMLFile
- RTmax_
: InclusionExclusionList::IEWindow
- RTmin_
: InclusionExclusionList::IEWindow
- RTNormalization()
: OpenSwathWorkflow
- rts
: Peptide
, ReactionMonitoringTransition
, Compound
- rts_
: IncludeExcludeTarget
- RTSimulation()
: RTSimulation
- rubber_band_
: SpectrumCanvas
- rules_
: SemanticValidator
, CVMappingFile
- run()
: MassTraceDetection
, FeatureFinderAlgorithm
, ItraqQuantifier
, FeatureFinderAlgorithmSH
, TOPPASMergerVertex
, TOPPASToolVertex
, FeatureFinderAlgorithmMRM
, TOPPASVertex
, BaseSuperimposer
, LabeledPairFinder
, PoseClusteringShiftSuperimposer
, QTClusterFinder
, ItraqChannelExtractor
, MascotRemoteQuery
, StablePairFinder
, AccurateMassSearchEngine
, FeatureFinderAlgorithmPicked
, FeatureFinder
, PoseClusteringAffineSuperimposer
, TOPPASOutputFileListVertex
, MassTraceDetection
, FeatureFinderAlgorithmIsotopeWavelet
, TOPPASInputFileListVertex
, AccurateMassSearchEngine
, FeatureFindingMetabo
, QTClusterFinder
, MetaboliteSpectralMatching
, BaseGroupFinder
, SimplePairFinder
- run_()
: QTClusterFinder
- run_id_
: QcMLFile
- run_Name_ID_map_
: QcMLFile
- runNextProcess()
: TOPPASScene
- running_
: TOPPASScene
- runPipeline()
: TOPPASBase
, TOPPASScene
- runQualityAts_
: QcMLFile
- runQualityQPs_
: QcMLFile
- runTOPPTool_()
: TOPPViewBase
- rWidth
: PenaltyFactors