Here is a list of all variables with links to the classes they belong to:
- r -
- r_squared_ : LinearRegression
- range_x_ : ClusteringGrid
- range_y_ : ClusteringGrid
- rank : MzTabMSmallMoleculeEvidenceSectionRow, NuXLReportRow, OPXLDataStructs::CrossLinkSpectrumMatch, Interpretation
- rank_ : IdentificationHit, ProteinHit
- rank_sp_weights_ : SequestOutfile
- ransac_params_ : MZTrafoModel
- ransac_seed_ : MZTrafoModel
- rate_result_ : Ms2IdentificationRate
- ratio_max_ : FuzzyStringComparator
- ratio_max_allowed_ : FuzzyStringComparator
- ratio_value_ : ConsensusFeature::Ratio
- ratios_ : ConsensusFeature
- raw_rt_score : OpenSwath_Scores
- re_ : EnzymaticDigestion
- reachable_ : TOPPASVertex
- recalculate_peaks_ : MRMTransitionGroupPicker
- recalculate_peaks_max_z_ : MRMTransitionGroupPicker
- recent_actions_ : RecentFilesMenu
- recent_files_ : RecentFilesMenu, TOPPViewBase
- recent_files_menu_ : TOPPASBase
- recent_menu_ : RecentFilesMenu
- record_length_ : InspectOutfile
- recursion_depth_ : ProgressLogger
- reestimate_mt_sd_ : MassTraceDetection
- ref_ : PrecisionWrapper< FloatingPointType >
- ref_begin_ : MatchedIterator< CONT_T, TRAIT, CONST_T >
- ref_end_ : MatchedIterator< CONT_T, TRAIT, CONST_T >
- ref_map_id_ : IsobaricNormalizer
- ref_param_ : MzMLHandler
- reference_ : MapAlignmentAlgorithmIdentification, MapAlignmentAlgorithmPoseClustering
- reference_channel_ : ItraqEightPlexQuantitationMethod, ItraqFourPlexQuantitationMethod, TMTEighteenPlexQuantitationMethod, TMTElevenPlexQuantitationMethod, TMTSixPlexQuantitationMethod, TMTSixteenPlexQuantitationMethod, TMTTenPlexQuantitationMethod
- reference_channel_name_ : IsobaricNormalizer
- reference_formats : SpectrumLookup
- reference_index_ : MapAlignmentAlgorithmIdentification
- reflectron_state_ : MassAnalyzer, MassAnalyzerVisualizer
- regex_description_ : DigestionEnzyme
- regexp_name_list_ : SpectrumLookup
- regexp_names_ : SpectrumLookup
- regexstr_prefix : DecoyHelper
- regexstr_suffix : DecoyHelper
- region_rt_span_ : EGHTraceFitter, GaussTraceFitter
- registered_at_ : LogStreamNotifier
- registered_mod_ : PepXMLFile::AminoAcidModification
- registry_ : MetaInfo
- rel_loss_intensity_ : TheoreticalSpectrumGenerator, TheoreticalSpectrumGeneratorXLMS
- rel_prec_error : NuXLReportRow
- relative_allowable_product_mass_ : TargetedSpectraExtractor
- relative_d : RANSACParam
- relative_intensities : TIC::Result
- relevant : FeatureDistance::DistanceParams_
- reliability : MzTabMSmallMoleculeSectionRow, MzTabNucleicAcidSectionRow, MzTabOligonucleotideSectionRow, MzTabOSMSectionRow, MzTabPeptideSectionRow, MzTabProteinSectionRow, MzTabPSMSectionRow, MzTabSmallMoleculeSectionRow
- reload_plugins_button_ : ToolsDialog
- remove_fixed_mods_ : MascotXMLHandler
- remove_low_intensity_quantifications_ : IsobaricChannelExtractor
- remove_overlapping_ : PeakPickerChromatogram, PeakPickerMobilogram
- remove_precursor_near_peaks_ : SequestInfile
- remove_single_traces_ : FeatureFindingMetabo
- removebutton_ : GradientVisualizer
- removeRowButton_ : ListEditor
- rep_charge : FLASHHelperClasses::MassFeature
- rep_mz : FLASHHelperClasses::MassFeature
- replacement_ : SVOutStream
- reply_ : NetworkGetRequest
- report_chromatograms_ : FeatureFindingMetabo
- report_convex_hulls_ : FeatureFindingMetabo
- report_decoy_ : FLASHDeconvAlgorithm
- report_FWHM_ : PeakPickerHiRes
- report_FWHM_as_ppm_ : PeakPickerHiRes
- report_mode_ : MetaboliteSpectralMatching
- report_smoothed_intensities_ : FeatureFindingMetabo
- report_summed_ints_ : FeatureFindingMetabo
- report_top_hits_ : NuXLFDR, PeptideSearchEngineFIAlgorithm, SimpleSearchEngineAlgorithm
- reported_mz_ : FeatureFinderAlgorithmPicked
- reporter_mass_shift_ : IsobaricChannelExtractor
- requested_score_higher_better : IDScoreSwitcherAlgorithm::IDSwitchResult
- requested_score_name : IDScoreSwitcherAlgorithm::IDSwitchResult
- requested_score_type : IDScoreSwitcherAlgorithm::IDSwitchResult
- require_same_charge : CentroidTolerances
- require_same_im : CentroidTolerances
- required : ParameterInformation
- required_modules_ : PythonModuleRequirement
- requirement_level_ : CVMappingRule
- requires_login_ : MascotRemoteQuery
- res_ : IonDetectorVisualizer, MassAnalyzerVisualizer
- res_method_ : MassAnalyzerVisualizer
- res_type_ : MassAnalyzerVisualizer
- resample_boundary_ : MRMTransitionGroupPicker
- reserved : TransitionFlags
- residue_by_one_letter_code_ : ResidueDB
- residue_mod_names_ : ResidueDB
- residue_names_ : ResidueDB
- residue_sets_ : Residue, ResidueDB
- residues : MzIdentMLDOMHandler::ModificationParam
- residues_by_set_ : ResidueDB
- residues_in_upper_case_ : SequestInfile
- resolution_ : IonDetector, MassAnalyzer
- resolution_l : MRMFeatureQC::ComponentGroupPairQCs
- resolution_method_ : MassAnalyzer
- resolution_pair_name : MRMFeatureQC::ComponentGroupPairQCs
- resolution_type_ : MassAnalyzer
- resolution_u : MRMFeatureQC::ComponentGroupPairQCs
- resolve_ambiguous_mods_ : NucleicAcidSearchEngine
- response_bytes_ : NetworkGetRequest
- restrictions_ : ListEditorDelegate
- result_ : MultiplexFilteredMSExperiment
- result_windows_even : SignalToNoiseEstimatorMedianRapid::NoiseEstimator
- result_windows_odd : SignalToNoiseEstimatorMedianRapid::NoiseEstimator
- results_ : Contaminants, DBSuitability, FragmentMassError, PSMExplainedIonCurrent
- resume_source_ : TOPPASScene
- retention_ : EmgFitter1D, EmgModel
- retention_time : MzTabMSmallMoleculeFeatureSectionRow, MzTabOligonucleotideSectionRow, MzTabOSMSectionRow, MzTabPeptideSectionRow, MzTabPSMSectionRow, MzTabSmallMoleculeSectionRow
- retention_time_ : Mobilogram, MSSpectrum, RetentionTime
- retention_time_l : MRMFeatureQC::ComponentGroupQCs, MRMFeatureQC::ComponentQCs
- retention_time_set_ : RetentionTime
- retention_time_type : RetentionTime
- retention_time_u : MRMFeatureQC::ComponentGroupQCs, MRMFeatureQC::ComponentQCs
- retention_time_unit : RetentionTime
- retention_time_window : MzTabOligonucleotideSectionRow, MzTabPeptideSectionRow
- retention_times : TIC::Result
- retentionTimeInterpretation_ : TransitionTSVFile
- reverse_ : HasActivationMethod< SpectrumType >, HasMetaValue< MetaContainer >, HasPrecursorCharge< SpectrumType >, HasScanMode< SpectrumType >, HasScanPolarity< SpectrumType >, InIntensityRange< PeakType >, InMSLevelRange< SpectrumType >, InMzRange< PeakType >, InPrecursorMZRange< SpectrumType >, InRTRange< SpectrumType >, IsEmptySpectrum< SpectrumType >, IsInCollisionEnergyRange< SpectrumType >, IsInIsolationWindow< SpectrumType >, IsInIsolationWindowSizeRange< SpectrumType >, IsZoomSpectrum< SpectrumType >
- reverse_nns_ : GridBasedClustering< Metric >
- ribonucleotides_ : RibonucleotideDB
- right : PeakPickerMobilogram::PeakPositions
- right_boundary : Range
- right_child : BinaryTreeNode
- right_count_from_apex_ : FLASHHelperClasses::PrecalculatedAveragine
- right_neighbor : ParentMatch
- right_splitter_ : HistogramWidget
- RIGHT_TERMINUS : ParentMatch
- right_width_ : PeakPickerChromatogram, PeakPickerMobilogram
- rightWidth : PeakCandidate
- rng_ : RandomShuffler, UniqueIdGenerator
- root_ : Param::ParamIterator, Param
- round_based_mode_ : TOPPASMergerVertex
- round_counter_ : TOPPASVertex
- round_masses_ : CoarseIsotopePatternGenerator
- round_total_ : TOPPASVertex
- rounding_errors_ : RealMassDecomposer
- row_ : BaseVisualizerGUI, QcMLFile
- rownames_ : DataMatrix
- rows_ : OverlapDetector, Matrix< Value >
- rsd_ : LinearRegression
- rt : FLASHHelperClasses::IsobaricQuantities, Observation
- RT : SpectrumMeta
- rt : NuXLReportRow, SiriusMSFile::CompoundInfo, SpectrumMetaDataLookup::SpectrumMetaData, LightCompound
- RT : OSSpectrumMeta
- rt : Peptide
- rt_ : KDTreeFeatureMaps, MultiplexFilteredPeak, MultiplexSatelliteProfile, MZTrafoModel, PeptideIdentification, PepXMLFile
- rt_apex : Biosaur2Algorithm::Hill, Biosaur2Algorithm::PeptideFeature
- RT_AXIS_TITLE : PlotWidget
- rt_band_ : MultiplexFiltering
- rt_calibrated : TransitionTSVFile::TSVTransition
- rt_coef : ConfidenceScoring::GLM_
- rt_delta_ : OSWPeakGroup
- rt_diff_l : MRMFeatureQC::ComponentGroupPairQCs
- rt_diff_u : MRMFeatureQC::ComponentGroupPairQCs
- rt_difference : OpenSwath_Scores
- rt_end : Biosaur2Algorithm::Hill, Biosaur2Algorithm::PeptideFeature, ChromatogramExtractorAlgorithm::ExtractionCoordinates, MzTabMSmallMoleculeFeatureSectionRow
- rt_experimental_ : OSWPeakGroup
- rt_extraction_window : ChromExtractParams
- rt_extraction_window_ : MRMFeatureFinderScoring
- rt_heavy_ : XQuestResultXMLHandler
- rt_idx_ : MultiplexFilteredPeak, MultiplexSatelliteCentroided
- rt_initialized_ : MSDataAggregatingConsumer
- rt_left_width_ : OSWPeakGroup
- rt_light_ : XQuestResultXMLHandler
- rt_max : FeatureFinderAlgorithmMetaboIdent::MassTraceBounds
- rt_max_ : SpectraMerger::SpectraDistance_
- rt_min : FeatureFinderAlgorithmMetaboIdent::MassTraceBounds
- rt_norm_ : ConfidenceScoring
- rt_normalization_factor_ : MRMFeatureFinderScoring, OpenSwathScoring
- rt_quantile_ : FeatureFinderIdentificationAlgorithm
- rt_range_ : FeatureFileOptions, PeakFileOptions
- rt_ranges_ : FeatureFinderAlgorithmMetaboIdent::FeatureFinderMetaboIdentCompound
- rt_right_width_ : OSWPeakGroup
- rt_scaling_ : MultiplexClustering::MultiplexDistance, MultiplexClustering
- rt_set_ : MzMLHandler
- rt_shift_ : Adduct, Compomer
- rt_shift_mean : FeatureSummary::Result
- rt_start : Biosaur2Algorithm::Hill, Biosaur2Algorithm::PeptideFeature, ChromatogramExtractorAlgorithm::ExtractionCoordinates, MzTabMSmallMoleculeFeatureSectionRow
- rt_tol_secs_ : FeatureGroupingAlgorithmKD, MapAlignmentAlgorithmKD
- rt_tolerance : CentroidTolerances, SpectrumLookup
- rt_tolerance_ : IDMapper
- rt_trafo : TOPPOpenSwathBase::CalibrationResult
- rt_trafo_ : ConfidenceScoring
- rt_transformation_ : FFIDAlgoExternalIDHandler
- rt_typical_ : MultiplexClustering
- rt_values : Biosaur2Algorithm::Hill
- rt_window_ : FeatureFinderAlgorithmMetaboIdent, FeatureFinderIdentificationAlgorithm, TargetedSpectraExtractor
- rts : ReactionMonitoringTransition, PeptideCompound
- rts_ : FeatureFinderAlgorithmMetaboIdent::FeatureFinderMetaboIdentCompound, IncludeExcludeTarget, SpectrumLookup
- rubber_band_ : PlotCanvas
- rules_ : CVMappingFile, SemanticValidator
- run_ : MSstatsFile::MSstatsLine_, MSstatsFile::MSstatsTMTLine_, TriqlerFile::TriqlerLine_
- run_id_ : MzMLSqliteHandler, OpenSwathOSWWriter, OSWData, QcMLFile
- run_Name_ID_map_ : QcMLFile
- run_to_search_engines_ : MzTab::CMMzTabStream, MzTab::IDMzTabStream
- run_to_search_engines_settings_ : MzTab::CMMzTabStream, MzTab::IDMzTabStream
- running_ : TOPPASScene
- runpath_to_identifier : ProteinIdentification::Mapping
- runQualityAts_ : QcMLFile
- runQualityQPs_ : QcMLFile
1.9.8 