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

- u -

• uisTransitions() : MRMAssay
• uisTransitionsLight() : MRMAssay
• UnableToCalibrate() : UnableToCalibrate
• UnableToCreateFile() : UnableToCreateFile
• UnableToFit() : UnableToFit
• unambiguousAACount() : AA
• uncompressData() : ZlibCompression, ZstdCompression
• uncompressString() : ZlibCompression
• uncorrect() : ProSEAlgorithm::MzRecalibration_
• undo() : Colorizer
• undoAll() : Colorizer
• unfindable() : NeighborSeq::NeighborStats
• unify() : SpectrumSettings
• UnimodXMLDataProvider() : UnimodXMLDataProvider
• UnimodXMLFile() : UnimodXMLFile
• UnimodXMLHandler() : UnimodXMLHandler
• UniProtXMLFile() : UniProtXMLFile
• UniProtXMLHandler() : UniProtXMLHandler
• UniqueIdGenerator() : UniqueIdGenerator
• UniqueIdInterface() : UniqueIdInterface
• uniqueIdToIndex() : UniqueIdIndexer< T >
• Unit() : CVTerm::Unit
• united() : DRange< D >
• units() : QuantificationUnits
• UnnormalizedComparator() : UnnormalizedComparator
• UnregisteredParameter() : UnregisteredParameter
• unregisterStream() : StreamHandler
• untargetedMatching() : TargetedSpectraExtractor
• unWeightData() : TransformationModel
• unWeightDatum() : TransformationModel
• unzipDirectory() : ZipArchiveFile
• update() : BasicStatistics< RealT >, Param, QTCluster
• updateAllIDReferences() : Feature
• updateAndMovePepIDs_() : IDMergerAlgorithm
• updateAvgMassError_() : PeakGroup
• updateBaseline() : FeatureFinderAlgorithmPickedHelperStructs::MassTraces
• updateCandidateMassBins_() : SpectralDeconvolution
• updateChannelMap() : ItraqConstants
• updateChargeFitScoreAndChargeIntensities_() : PeakGroup
• updateChargeRange_() : PeakGroup
• updateClustering_() : QTClusterFinder
• updateClusterProxies_() : FeatureGroupingAlgorithmKD
• updateCurrentFeature_() : FeatureXMLHandler
• updateFeatureVariant_() : ILPDCWrapper
• updateFinalStats() : ProSEAlgorithm
• updateFromParent_() : LogStreamBuf
• updateFromParentLocked_() : LogStreamBuf
• updateGridDimension_() : HashGrid< Cluster >
• updateIDReferences() : BaseFeature
• updateIsotopeMatrixFromStringList() : ItraqConstants
• updateIterativeWeightedMean_() : MassTraceDetection
• updateLogMzPeaks_() : SpectralDeconvolution
• updateMassBins_() : SpectralDeconvolution
• updateMaximum() : FeatureFinderAlgorithmPickedHelperStructs::MassTrace
• updateMeanMZ() : MassTrace
• updateMedianMZ() : MassTrace
• updateMedianRT() : MassTrace
• updateMembers_() : AbsoluteQuantitation, AccurateMassSearchEngine, AScore, BaseModel, BayesianProteinInferenceAlgorithm, BiGaussFitter1D, BiGaussModel, BinnedSharedPeakCount, BinnedSpectralContrastAngle, BinnedSumAgreeingIntensities, Biosaur2Algorithm, CalibrationWorkflow, DefaultParamHandler, DiaPrescore, DIAScoring, EGHTraceFitter, ElutionPeakDetection, EmgFitter1D, EmgGradientDescent, EmgModel, ExtendedIsotopeFitter1D, ExtendedIsotopeModel, FeatureDeconvolution, FeatureDistance, FeatureFinderAlgorithmMetaboIdent, FeatureFinderAlgorithmPicked, FeatureFinderIdentificationAlgorithm, FeatureFindingMetabo, FIAMSDataProcessor, Fitter1D, FLASHDeconvAlgorithm, FragmentIndex, GaussFilter, GaussFitter1D, GaussModel, GaussTraceFitter, IDMapper, IDScoreSwitcherAlgorithm, IncludeExcludeTarget, InterpolationModel, IsobaricChannelExtractor, IsobaricQuantifier, IsotopeFitter1D, IsotopeLabelingMDVs, IsotopeModel, ItraqEightPlexQuantitationMethod, ItraqFourPlexQuantitationMethod, KDTreeFeatureMaps, LevMarqFitter1D, LinearResamplerAlign, LowessSmoothing, MapAlignmentAlgorithmKD, MapAlignmentAlgorithmPoseClustering, MapAlignmentAlgorithmTreeGuided, MascotGenericFile, MascotRemoteQuery, MassDecompositionAlgorithm, MassFeatureTrace, MassTraceDetection, MaxLikeliFitter1D, MetaboliteFeatureDeconvolution, MetaboliteSpectralMatching, ModifiedSincSmoother, MRMDecoy, MRMFeatureFilter, MRMFeatureFinderScoring, MRMMapping, MRMTransitionGroupPicker, MSPGenericFile, MultiplexResolverAlgorithm, NLargest, Normalizer, NucleicAcidSpectrumGenerator, OpenPepXLAlgorithm, OpenSwathPercolatorScoring, PeakIntegrator, PeakPickerChromatogram, PeakPickerHiRes, PeakPickerIM, PeakPickerIterative, PeakPickerMobilogram, PeptDeepRescoring, PeptideAndProteinQuant, PeptideIndexing, Percolator, ProSEAlgorithm, ReactionMonitoringTransition, SavitzkyGolayFilter, SignalToNoiseEstimatorMeanIterative< Container >, SignalToNoiseEstimatorMedian< Container >, SimpleSearchEngineAlgorithm, SimpleTSGXLMS, SpectralDeconvolution, SpectraMerger::SpectraDistance_, SpectrumAnnotator, SpectrumCheapDPCorr, StablePairFinder, SwathMapMassCorrection, TargetedSpectraExtractor, TheoreticalSpectrumGenerator, TheoreticalSpectrumGeneratorXLMS, TMTEighteenPlexQuantitationMethod, TMTElevenPlexQuantitationMethod, TMTSixPlexQuantitationMethod, TMTSixteenPlexQuantitationMethod, TMTTenPlexQuantitationMethod, TMTThirtyFivePlexQuantitationMethod, TMTThirtyTwoPlexQuantitationMethod, TopDownIsobaricQuantification, TraceFitter, TransitionListEvidenceFilter, TransitionTSVFile, XFDRAlgorithm
• updateMetaValue() : MRMFeatureFilter
• updateMinElement() : DistanceMatrix< Value >
• updateMonoMassAndIsotopeIntensities() : PeakGroup
• updateMSLevels_() : FLASHDeconvAlgorithm
• updateOutputMap_() : IsobaricIsotopeCorrector
• updatePeakGroupQvalues() : Qvalue
• updatePerChargeCos_() : PeakGroup
• updatePerChargeInformation_() : PeakGroup
• updatePosition() : FuzzyStringComparator::InputLine
• updatePrecursorPercentage_() : NucleicAcidSearchEngine
• updatePrecursorQScores_() : FLASHDeconvAlgorithm
• updateProteinGroups() : IDFilter
• updateProteinScores_() : BasicProteinInferenceAlgorithm
• updateQscore() : PeakGroup
• updateRange() : MRMFeatureFilter
• updateRanges() : ConsensusMap, FeatureMap, Mobilogram, MSChromatogram, MSExperiment, MSSpectrum, RangeManagerContainer< RangeBases >
• updateScores() : PosteriorErrorProbabilityModel
• updateScores_() : PosteriorErrorProbabilityModel
• updateSmoothedMaxRT() : MassTrace
• updateSmoothedWeightedMeanRT() : MassTrace
• updateSNR_() : PeakGroup
• updateState_() : LogStream
• updateUniqueIdToIndex() : UniqueIdIndexer< T >
• updateWeightedMeanMZ() : MassTrace
• updateWeightedMeanRT() : MassTrace
• updateWeightedMZsd() : MassTrace
• updateWhiteMSExperiment_() : MultiplexFiltering
• upperBound() : NuXLPrecursorIndex
• url() : ControlledVocabulary
• usage() : SysInfo::MemUsage
• usedDefaultDirection() : Percolator
• usePPM() : CalibrationData
• userTime() : StopWatch::TimeDiff_
• useSearchEngineScore_() : ProSEAlgorithm
• useShortXLGroup() : NuXLFDR
• USI() : USI