Here is a list of all class members with links to the classes they belong to:

- n -

• n : EmgFitter1D::Data
• N : ExtendedIsotopeModel , IsotopeModel
• n : RANSACParam
• n_ : LinearRegressionWithoutIntercept
• n_buffer_ : Bzip2Ifstream , GzipIfstream
• n_decoys_ : ConfidenceScoring
• n_detecting_l : MRMFeatureQC::ComponentGroupQCs
• n_detecting_u : MRMFeatureQC::ComponentGroupQCs
• n_external_features_ : FeatureFinderIdentificationAlgorithm
• n_external_peps_ : FeatureFinderIdentificationAlgorithm
• n_fractions : PeptideAndProteinQuant::Statistics
• n_heavy_l : MRMFeatureQC::ComponentGroupQCs
• n_heavy_u : MRMFeatureQC::ComponentGroupQCs
• n_hits_ : XQuestResultXMLHandler , XQuestResultXMLFile
• n_identifying_l : MRMFeatureQC::ComponentGroupQCs
• n_identifying_u : MRMFeatureQC::ComponentGroupQCs
• n_internal_features_ : FeatureFinderIdentificationAlgorithm
• n_internal_peps_ : FeatureFinderIdentificationAlgorithm
• n_isotopes_ : FeatureFinderAlgorithmMetaboIdent , FeatureFinderIdentificationAlgorithm
• n_light_l : MRMFeatureQC::ComponentGroupQCs
• n_light_u : MRMFeatureQC::ComponentGroupQCs
• n_ms_files : PeptideAndProteinQuant::Statistics
• n_parts_ : SimpleSVM
• n_peaks : MorpheusScore::Result
• n_points_ : AbsoluteQuantitationMethod
• n_quantifying_l : MRMFeatureQC::ComponentGroupQCs
• n_quantifying_u : MRMFeatureQC::ComponentGroupQCs
• n_samples : PeptideAndProteinQuant::Statistics
• n_shared_ : FeatureFinderAlgorithmMetaboIdent
• n_spectra_ : SpectrumLookup
• n_study_variables_ : MzTab::CMMzTabStream
• N_TERM : OPXLDataStructs , ResidueModification
• n_term_gain_ : DigestionEnzymeProtein
• n_term_mod_ : AASequence
• N_TERM_MODIFICATION_INDEX : ModifiedPeptideGenerator
• N_TERMINAL_AA : PeptideEvidence
• N_TERMINAL_POSITION : PeptideEvidence
• n_times() : TVIdentificationViewController
• n_transitions_ : ConfidenceScoring
• n_transitions_l : MRMFeatureQC::ComponentGroupQCs
• n_transitions_u : MRMFeatureQC::ComponentGroupQCs
• na_string_ : MSstatsFile , TriqlerFile
• name : ControlledVocabulary::CVTerm , ControlledVocabulary , CsiFingerIdMzTabWriter::CsiAdapterHit , CVTerm::Unit , DecoyHelper::Result , FalseDiscoveryRate::DecoyStringHelper::Result , IdentifiedCompound , InputFile , MzIdentMLDOMHandler::AnalysisSoftware , MzIdentMLDOMHandler::DatabaseInput , SemanticValidator::CVTerm , ToolDescriptionInternal , IsobaricQuantitationMethod::IsobaricChannelInformation , ItraqConstants::ChannelInfo , MzTabContactMetaData , MzTabInstrumentMetaData , MzTabMAssayMetaData , MzTabMStudyVariableMetaData , Param::ParamEntry , Param::ParamIterator::TraceInfo , Param::ParamNode , ParameterInformation , QcMLFile::Attachment , QcMLFile::QualityParameter , RangeStatsType
• name_ : AdductInfo , Contaminants , ControlledVocabulary , CVReference , CVTerm , DigestionEnzyme , Element , BaseException , GlobalExceptionHandler , FeatureFinderAlgorithmMetaboIdent::FeatureFinderMetaboIdentCompound , FeatureSummary , HMMState , IdentificationHit , IdentificationSummary , IMSElement , IncludeExcludeTarget , Instrument , InstrumentVisualizer , PTMXMLHandler , ItraqEightPlexQuantitationMethod , ItraqFourPlexQuantitationMethod , LayerDataBase , MetaInfoDescription , ModelDescription< D > , Ms2IdentificationRate , Ms2SpectrumStats , MSChromatogram , MSSpectrum , MzTabParameter , QcMLFile , ReactionMonitoringTransition , Residue , ResidueModification , Ribonucleotide , RTAlignment , Sample , Software , SpectrumCount , TIC , TMTEighteenPlexQuantitationMethod , TMTElevenPlexQuantitationMethod , TMTSixPlexQuantitationMethod , TMTSixteenPlexQuantitationMethod , TMTTenPlexQuantitationMethod , ToolInfo , TOPPASToolVertex
• name_att_ : SemanticValidator
• name_container : IMSAlphabet
• name_iterator : IMSAlphabet
• name_of_file_ : SourceFile , SourceFileVisualizer
• name_suffix_ : LayerDataBase
• name_to_counter_map_ : StreamHandler
• name_to_index_ : MetaInfoRegistry
• name_to_state_ : HiddenMarkovModel
• name_to_stream_map_ : StreamHandler
• name_to_type_map_ : StreamHandler
• name_type : IMSAlphabet , IMSElement
• NAMES : ColorBrewer::Distinct
• names_ : ElementDB , QcMLFile
• names_of_missing_decoy : PeptideIndexing
• names_of_modeltype : MZTrafoModel
• names_of_OriginAnnotationFormat : IDRipper
• names_of_oswlevel : OSWFile
• names_of_quantmethod : MassTrace
• names_of_requires : QCBase
• names_of_toleranceUnit : QCBase
• names_of_unmatched : PeptideIndexing
• NamesOfAcquisitionMode : IonDetector
• NamesOfActivationMethod : Precursor
• NamesOfActivationMethodShort : Precursor
• NamesOfAnalyzerType : MassAnalyzer
• NamesOfAnnotationState : BaseFeature
• NamesOfChecksumType : SourceFile
• NamesOfDataType : DataValue
• NamesOfDerivatizationAgent : IsotopeLabelingMDVs
• NamesOfInletType : IonSource
• NamesOfIonizationMethod : IonSource
• NamesOfIonOpticsType : Instrument
• NamesOfIsotopeVariant : Tagging
• NamesOfLabelType : LayerDataDefs
• NamesOfMassIntensityType : IsotopeLabelingMDVs
• NamesOfNumpressCompression : MSNumpressCoder
• NamesOfPeakMassType : ProteinIdentification
• NamesOfPolarity : IonSource
• NamesOfProcessingAction : DataProcessing
• NamesOfQuantTypes : MSQuantifications
• NamesOfReflectronState : MassAnalyzer
• NamesOfResolutionMethod : MassAnalyzer
• NamesOfResolutionType : MassAnalyzer
• NamesOfSampleState : Sample
• NamesOfScanDirection : MassAnalyzer
• NamesOfScanLaw : MassAnalyzer
• NamesOfScanMode : InstrumentSettings
• NamesOfScoringMatrices : NeedlemanWunsch
• NamesOfSpecificity : EnzymaticDigestion
• NamesOfSpecificityType : Modification
• NamesOfSpectrumType : SpectrumSettings
• NamesOfType : IonDetector
• namesToIds_ : ControlledVocabulary
• nameToEnum() : MZTrafoModel
• nameToType() : FileTypes
• nan_ : SVOutStream
• NANOSPRAY : IonSource
• NASequence() : NASequence
• NASequence::ConstIterator : NASequence::Iterator
• NASFragmentType : NASequence
• native_id : SpectrumMetaDataLookup::SpectrumMetaData
• native_id_ : ChromatogramSettings , SpectrumSettings , SpectrumSettingsVisualizer
• native_id_accession : SiriusMSFile::AccessionInfo
• native_id_type : SiriusMSFile::AccessionInfo
• native_id_type_ : SourceFile , SourceFileVisualizer
• native_id_type_accession_ : SourceFile
• native_ids : CsiFingerIdMzTabWriter::CsiAdapterIdentification , SiriusMSFile::CompoundInfo , SiriusMzTabWriter::SiriusAdapterIdentification
• native_ids_id : SiriusMSFile::CompoundInfo
• native_spectrum_name_ : PepXMLFile
• nativeid_to_index_ : QCBase::SpectraMap
• NATURAL : ResidueModification
• Navigator() : SplineInterpolatedPeaks::Navigator
• nchoosekcombinations_() : MRMAssay
• near_ : Plot3DOpenGLCanvas
• nearest_() : FeatureFinderAlgorithmPicked
• nearest_neighbour_index_ : MinimumDistance
• needle_count_ : ACTrie
• needle_index : Hit
• needle_length : Hit
• NeedlemanWunsch() : NeedlemanWunsch
• needs_ : TOPPViewMenu::ActionRequirement_
• neg_ : ROCCurve
• neg_adducts_ : AccurateMassSearchEngine
• neg_adducts_fname_ : AccurateMassSearchEngine
• neg_charges_ : Compomer
• NEGATIVE : IonSource
• negative_iso_peaks_ : PeakGroup
• negative_mode_ : MetaboliteFeatureDeconvolution
• negative_prior_ : PosteriorErrorProbabilityModel
• NeighborList : QTCluster
• NeighborMap : QTCluster
• NeighborMapMulti : QTCluster
• neighbors_ : QTCluster::BulkData
• NESI : IonSource
• nesting_level_ : MzXMLHandler
• net_charge_ : Compomer
• network_manager_ : TOPPASBase
• network_reply_ : TOPPASBase
• NetworkGetRequest() : NetworkGetRequest
• neutral_loss_average_masses_ : ResidueModification
• neutral_loss_avg_masses_ : UnimodXMLHandler
• neutral_loss_diff_formula_ : UnimodXMLHandler
• neutral_loss_diff_formulas_ : UnimodXMLHandler , ResidueModification
• neutral_loss_mono_masses_ : UnimodXMLHandler , ResidueModification
• neutral_losses_for_ions_ : SequestInfile
• NeutralLossDiffFilter() : NeutralLossDiffFilter
• NeutralLossMarker() : NeutralLossMarker
• new_code_ : Ribonucleotide
• new_eluent_ : GradientVisualizer
• new_node : _Alloc_base< _Tp, _Alloc >::NoLeakAlloc
• new_score_ : IDScoreSwitcherAlgorithm
• new_score_type_ : IDScoreSwitcherAlgorithm
• new_timepoint_ : GradientVisualizer
• newdescription_ : MetaInfoVisualizer
• newFile() : File::TemporaryFiles_
• newHandler() : GlobalExceptionHandler
• newHoveringEdge() : TOPPASVertex
• newickTree() : ClusterAnalyzer
• newkey_ : MetaInfoVisualizer
• NEWLINE : ParameterInformation
• newline_ : SVOutStream
• newPipeline() : TOPPASBase
• newRowButton_ : ListEditor
• newvalue_ : MetaInfoVisualizer
• next_consumer_ : MSDataAggregatingConsumer
• next_index_ : MetaInfoRegistry
• next_v : IDBoostGraph::dfs_ccsplit_visitor
• nextConf() : IsoSpecGeneratorWrapper , IsoSpecOrderedGeneratorWrapper , IsoSpecThresholdGeneratorWrapper , IsoSpecTotalProbGeneratorWrapper
• nextHits() : ACTrie
• nextHitsNoClear_() : ACTrie
• nextPEPRow() : MzTab::CMMzTabStream , MzTab::IDMzTabStream
• nextProgress() : GUIProgressLoggerImpl , ProgressLogger , ProgressLogger::ProgressLoggerImpl
• nextProteinSectionRowFromIndistinguishableGroup_() : MzTab
• nextProteinSectionRowFromProteinGroup_() : MzTab
• nextPRTRow() : MzTab::CMMzTabStream , MzTab::IDMzTabStream
• nextPSMRow() : MzTab::CMMzTabStream , MzTab::IDMzTabStream
• nextrow_ : GradientVisualizer , MetaInfoVisualizer
• nextScan_() : AreaIterator< ValueT, ReferenceT, PointerT, SpectrumIteratorT, PeakIteratorT >
• nextValidAA() : ACSpawn , ACTrieState
• NICI : IonSource
• NLargest() : NLargest
• NLINKED_GLYCOSYLATION : ResidueModification
• NM_SCALE : ConsensusMapNormalizerAlgorithmMedian
• NM_SHIFT : ConsensusMapNormalizerAlgorithmMedian
• nn_threshold : MRMFeatureSelector::SelectorParameters
• NNIterator : GridBasedClustering< Metric >
• no_checks_ : IdentificationData
• no_exceptions : Summary
• NO_FEASIBLE_SOL : LPWrapper
• no_id : RNPxlReportRow
• no_mzml_ : MzCalibration
• no_precursors : IDMapper::SpectraIdentificationState
• no_rt_error_ : MascotXMLHandler
• NoCleavage : EnzymaticDigestion
• NODE : ParamEditor
• node_offset_ : TOPPASBase
• NodeIterator : Param::ParamNode
• nodes : Param::ParamNode
• nodes_ : SimpleSVM
• noID_penalty_ : QTClusterFinder
• noise_dummy : PeakGroup
• noise_for_empty_window_ : SignalToNoiseEstimatorMeanIterative< Container > , SignalToNoiseEstimatorMedian< Container >
• noise_level_ : PeakPickerCWT
• noise_threshold_constant_ : MetaboTargetedAssay
• noise_threshold_int_ : MassTraceDetection
• NoiseEstimator() : SignalToNoiseEstimatorMedianRapid::NoiseEstimator
• NoLeakAlloc() : _Alloc_base< _Tp, _Alloc >::NoLeakAlloc
• noloss_regex_ : SpectrumAnnotator
• nominal_mass_ : IMSIsotopeDistribution
• nominal_mass_type : IMSElement , IMSIsotopeDistribution
• NONE : ControlledVocabulary::CVTerm , MassAnalyzer , MSNumpressCoder , ParameterInformation , ProgressLogger , String
• NonIdentified : NASequence , Residue
• NONSTANDARD_RESIDUE : ResidueModification
• NoopMSDataConsumer() : NoopMSDataConsumer
• NoopMSDataWritingConsumer() : NoopMSDataWritingConsumer
• norm_factor : FeatureDistance::DistanceParams_
• norm_rt_score : OpenSwath_Scores
• NORMAL_ITEM : ParamEditor
• normalApproximation() : BasicStatistics< RealT >
• normalApproximationHelper_() : BasicStatistics< RealT >
• normalDensity() : BasicStatistics< RealT >
• normalDensity_sqrt2pi() : BasicStatistics< RealT >
• NORMALIZATION : DataProcessing
• normalization_enabled_ : IsobaricQuantifier
• NormalizationMethod : ConsensusMapNormalizerAlgorithmMedian
• normalize() : IMSIsotopeDistribution , IsobaricNormalizer
• normalize_() : DIntervalBase< D >
• normalize_xcorr_ : SequestInfile
• normalizeAngle() : Plot3DOpenGLCanvas
• normalizeBins_() : IDDecoyProbability
• normalized_experimental_rt : OpenSwath_Scores
• normalizeMaps() : ConsensusMapNormalizerAlgorithmMedian , ConsensusMapNormalizerAlgorithmQuantile , ConsensusMapNormalizerAlgorithmThreshold
• normalizePeptides_() : PeptideAndProteinQuant
• Normalizer() : Normalizer
• norms_ : FLASHDeconvHelperStructs::PrecalculatedAveragine
• NoSuccessor() : FeatureFinderDefs::NoSuccessor
• notConditionalGivenSum() : MessagePasserFactory< Label >
• note : TransformationModel::DataPoint
• NOTICE : LogWindow
• notify() : QApplicationTOPP
• NotImplemented() : NotImplemented
• notInSeq() : RNPxlModificationsGenerator
• NOVOR : FileTypes
• now() : DateTime
• np_compression : MzMLHandlerHelper::BinaryData , MSNumpressCoder::NumpressConfig
• np_config_fda_ : PeakFileOptions
• np_config_int_ : PeakFileOptions
• np_config_mz_ : PeakFileOptions
• nr_charges_ : DiaPrescore
• nr_children : ACNode
• nr_isotopes_ : DiaPrescore
• nr_iterations_ : PeakPickerIterative
• nr_ms1_spectra_ : CachedSwathFileConsumer , MzMLSwathFileConsumer , SwathQC
• nr_ms2_spectra_ : CachedSwathFileConsumer , MzMLSwathFileConsumer
• nr_partitions_ : QTClusterFinder
• nr_peaks : OpenSwath_Scores
• nr_windows : SignalToNoiseEstimatorMedianRapid::NoiseEstimator
• nrCombos() : GridSearch< TupleTypes >
• NRMS : IonSource
• nrPrefractionationGroups_ : IDBoostGraph
• nrPrimaryMSRunPaths() : ProteinIdentification
• nt_regex_ : SpectrumAnnotator
• NTERM : Modification
• NTerm_loss_formulas_ : Residue
• NTerm_loss_names_ : Residue
• NTerminal : Residue
• nucleic_acid_data_ : MzTab
• nucleic_acid_search_engine_score : MzTabMetaData
• NucleicAcidSearchEngine() : NucleicAcidSearchEngine
• NucleicAcidSpectrumGenerator() : NucleicAcidSpectrumGenerator
• nucleotide_reading_frame_ : SequestInfile
• NullPointer() : NullPointer
• num_frags_ : SequestOutfile
• num_interest : DBSuitability::SuitabilityData
• num_iso_peaks_mean : OPXLDataStructs::CrossLinkSpectrumMatch
• num_iso_peaks_mean_linear_alpha : OPXLDataStructs::CrossLinkSpectrumMatch
• num_iso_peaks_mean_linear_beta : OPXLDataStructs::CrossLinkSpectrumMatch
• num_iso_peaks_mean_xlinks_alpha : OPXLDataStructs::CrossLinkSpectrumMatch
• num_iso_peaks_mean_xlinks_beta : OPXLDataStructs::CrossLinkSpectrumMatch
• num_maps_ : KDTreeFeatureMaps , QTCluster::BulkData , QTClusterFinder
• num_ms2_spectra : Ms2IdentificationRate::IdentificationRateData
• num_oligos_distinct_ms_run : MzTabNucleicAcidSectionRow
• num_oligos_unique_ms_run : MzTabNucleicAcidSectionRow
• num_osms_ms_run : MzTabNucleicAcidSectionRow
• NUM_PARAMS_ : EGHTraceFitter , GaussTraceFitter
• num_peptide_identification : Ms2IdentificationRate::IdentificationRateData
• num_peptides_distinct_ms_run : MzTabProteinSectionRow
• num_peptides_unique_ms_run : MzTabProteinSectionRow
• num_psms_ms_run : MzTabProteinSectionRow
• num_re_ranked : DBSuitability::SuitabilityData
• num_top_db : DBSuitability::SuitabilityData
• num_top_novo : DBSuitability::SuitabilityData
• num_top_novo_corr : DBSuitability::SuitabilityData
• number : FuzzyStringComparator::StreamElement_ , String
• number_ : Sample
• number_ms2_empty : IsobaricQuantifierStatistics
• number_ms2_total : IsobaricQuantifierStatistics
• NUMBER_OF_CROSS_LINK_TYPES : OPXLDataStructs
• number_of_datapoints : LayerDataDefs::ProjectionData::Summary
• number_of_decompositions_type : RealMassDecomposer
• number_of_decoy : ProteinResolver::MSDGroup
• number_of_experimental_peptides : ProteinResolver::ProteinEntry
• number_of_max_aa_ : MassDecomposition
• number_of_missed_cleavages_ : XTandemInfile
• number_of_runs_ : ConsensusIDAlgorithm
• NUMBER_OF_SOURCE_CLASSIFICATIONS : ResidueModification
• number_of_target : ProteinResolver::MSDGroup
• number_of_target_plus_decoy : ProteinResolver::MSDGroup
• NUMBER_OF_TERM_SPECIFICITY : ResidueModification , Ribonucleotide
• number_of_threads_ : XTandemInfile
• number_top_hits_ : OpenPepXLAlgorithm , OpenPepXLLFAlgorithm
• numberLength() : String
• numberOfMatchedIons_() : AScore
• numberOfPhosphoEvents_() : AScore
• numberOfUniqueProteins() : DBSuitability_friend
• numberOfUniqueProteins_() : DBSuitability
• numden_r_ids_ : MzQuantMLHandler
• numerator_ref_ : ConsensusFeature::Ratio
• numIterations() : TOPPASToolVertex
• numMaps() : KDTreeFeatureMaps
• NumpressCompression : MSNumpressCoder
• NumpressConfig() : MSNumpressCoder::NumpressConfig
• numpressErrorTolerance : MSNumpressCoder::NumpressConfig
• numpressFixedPoint : MSNumpressCoder::NumpressConfig