- f -

• Factory() : Factory< FactoryProduct >
• FailedAPICall() : FailedAPICall
• FalseDiscoveryRate() : FalseDiscoveryRate
• FASTAContainer() : FASTAContainer< TFI_File > , FASTAContainer< TFI_Vector >
• FASTAEntry() : FASTAFile::FASTAEntry
• FASTAFile() : FASTAFile
• fatalError() : XMLHandler , XMLValidator
• fdr_xprophet_() : XFDRAlgorithm
• Feature() : Feature
• feature() : KDTreeFeatureMaps
• FeatureDeconvolution() : FeatureDeconvolution
• FeatureDistance() : FeatureDistance
• FeatureEditDialog() : FeatureEditDialog
• FeatureFileOptions() : FeatureFileOptions
• FeatureFinder() : FeatureFinder
• FeatureFinderAlgorithm() : FeatureFinderAlgorithm
• FeatureFinderAlgorithmIsotopeWavelet() : FeatureFinderAlgorithmIsotopeWavelet
• FeatureFinderAlgorithmMRM() : FeatureFinderAlgorithmMRM
• FeatureFinderAlgorithmPicked() : FeatureFinderAlgorithmPicked
• FeatureFinderAlgorithmSH() : FeatureFinderAlgorithmSH
• FeatureFinderAlgorithmSHCtrl() : FeatureFinderAlgorithmSHCtrl
• FeatureFinderIdentificationAlgorithm() : FeatureFinderIdentificationAlgorithm
• FeatureFinderMultiplexAlgorithm() : FeatureFinderMultiplexAlgorithm
• FeatureFindingMetabo() : FeatureFindingMetabo
• FeatureGroupingAlgorithm() : FeatureGroupingAlgorithm
• FeatureGroupingAlgorithmKD() : FeatureGroupingAlgorithmKD
• FeatureGroupingAlgorithmLabeled() : FeatureGroupingAlgorithmLabeled
• FeatureGroupingAlgorithmQT() : FeatureGroupingAlgorithmQT
• FeatureGroupingAlgorithmUnlabeled() : FeatureGroupingAlgorithmUnlabeled
• FeatureHandle() : FeatureHandle
• FeatureHandleMutable_() : FeatureHandle::FeatureHandleMutable_
• FeatureHypothesis() : FeatureHypothesis
• FeatureLCProfile() : FeatureLCProfile
• FeatureMap() : FeatureMap
• FeatureOpenMS() : FeatureOpenMS
• FeatureXMLFile() : FeatureXMLFile
• fetchSpectrumSwath() : OpenSwathScoring
• FIAMSDataProcessor() : FIAMSDataProcessor
• FIAMSScheduler() : FIAMSScheduler
• FidHandler() : FidHandler
• field_changed_() : DataFilterDialog
• file_() : GlobalExceptionHandler
• fileChanged() : FileWatcher
• fileChanged_() : TOPPViewBase
• FileEmpty() : FileEmpty
• fileList() : File
• fileNamesValid() : TOPPASInputFileListVertex
• FileNameTooLong() : FileNameTooLong
• FileNotFound() : FileNotFound
• FileNotReadable() : FileNotReadable
• FileNotWritable() : FileNotWritable
• fileOpen() : QApplicationTOPP
• fileParamValidityCheck_() : TOPPBase
• FileWatcher() : FileWatcher
• fillCalibrants() : InternalCalibration
• fillChromatogramData_() : MzMLHandler
• fillComboBox_() : BaseVisualizerGUI
• fillComboBoxes_() : TOPPASIOMappingDialog
• fillData_() : MzDataHandler
• fillDensities() : PosteriorErrorProbabilityModel
• fillExtendedResidueTable_() : IntegerMassDecomposer< ValueType, DecompositionValueType >
• fillFromInputLine() : FuzzyStringComparator::StreamElement_
• fillGaps_() : CoarseIsotopePatternGenerator
• fillID_() : InternalCalibration
• fillIDs_() : InternalCalibration
• fillIndistinguishableGroupsWithSingletons() : ProteinIdentification
• fillInputVector_() : IsobaricIsotopeCorrector
• fillIntensities() : BaseModel< D >
• fillIntensity() : BaseModel< D >
• fillLabelMasterList_() : MultiplexDeltaMassesGenerator
• fillLeft() : String , StringUtils
• fillLogDensities() : PosteriorErrorProbabilityModel
• fillLogDensitiesGumbel() : PosteriorErrorProbabilityModel
• fillRight() : String , StringUtils
• fillVectorsOfMessagePassers() : MessagePasserFactory< Label >
• filter() : GaussFilter , GaussFilterAlgorithm , MorphologicalFilter , MultiplexFilteringCentroided , MultiplexFilteringProfile , SavitzkyGolayFilter
• filterAveragineModel_() : MultiplexFiltering , MultiplexFilteringProfile
• filterByMissedCleavages() : EnzymaticDigestion
• filterByPeakWidth() : ElutionPeakDetection
• filterCCs_() : MapAlignmentAlgorithmKD
• filterChanged() : FilterList
• filterDecomps_() : CompNovoIdentificationBase
• filterDeisotopicMSPeak() : ProcessData
• filterDetectability() : DetectabilitySimulation
• filterEdit_() : FilterList
• filterExperiment() : GaussFilter , MorphologicalFilter , SavitzkyGolayFilter
• FilterFeatureMap() : MRMFeatureFilter
• FilterFeatureMapBackgroundInterference() : MRMFeatureFilter
• FilterFeatureMapPercRSD() : MRMFeatureFilter
• filterFeatures_() : FeatureFinderIdentificationAlgorithm
• filterFeaturesFinalizeAssay_() : FeatureFinderIdentificationAlgorithm
• FilterFunctor() : FilterFunctor
• filterGroupsByScore() : IDFilter
• filterHits_() : MetaDataBrowser
• filterHitsByRank() : IDFilter
• filterHitsByScore() : IDFilter
• FilterList() : FilterList
• filterPeakMap() : BernNorm , MarkerMower , NLargest , Normalizer , ParentPeakMower , Scaler , SqrtMower , ThresholdMower , WindowMower
• filterPeakPositions_() : MultiplexFiltering
• filterPeakSpectrum() : BernNorm , MarkerMower , NLargest , Normalizer , ParentPeakMower , Scaler , SqrtMower , ThresholdMower , WindowMower
• filterPeakSpectrumForTopNInJumpingWindow() : WindowMower
• filterPeakSpectrumForTopNInSlidingWindow() : WindowMower
• filterPeptideCorrelation_() : MultiplexFiltering , MultiplexFilteringProfile
• filterPeptideEvidences() : IDFilter::DigestionFilter , IDFilter
• FilterPeptideEvidences() : IDFilter
• filterPeptideIds_() : PrecursorIonSelection
• filterPeptidesByCharge() : IDFilter
• filterPeptidesByLength() : IDFilter
• filterPeptidesByMZ() : IDFilter
• filterPeptidesByMZError() : IDFilter
• filterPeptidesByRT() : IDFilter
• filterPeptidesByRTPredictPValue() : IDFilter
• filterPeptideSequences() : IDFilter::PeptideDigestionFilter
• filterPermuts_() : CompNovoIdentificationBase
• filterPrecursorsByTags() : OPXLHelper
• filterProtIds_() : PrecursorIonSelection
• filterQueryMatchesByScore() : IDFilter
• filterRange() : MorphologicalFilter
• filterSpectrum() : BernNorm , MarkerMower , NLargest , Normalizer , ParentPeakMower , Scaler , SqrtMower , ThresholdMower
• filterTaxonomyIdentifier_() : PrecursorIonSelectionPreprocessing
• finalizeCluster() : QTCluster
• find() : KDTree< __K, _Val, _Acc, _Dist, _Cmp, _Alloc > , File
• find_AC() : MS2Info
• find_closest_mz_match() : ProcessData
• find_exact() : KDTree< __K, _Val, _Acc, _Dist, _Cmp, _Alloc >
• find_feature_by_ID() : LCMS
• find_LC_MS_by_ID() : LCMS
• find_match_by_id() : SHFeature
• find_Modification() : MS2Info
• find_nearest() : KDTree< __K, _Val, _Acc, _Dist, _Cmp, _Alloc >
• find_nearest_if() : KDTree< __K, _Val, _Acc, _Dist, _Cmp, _Alloc >
• find_retention_time() : ProcessData
• find_true_peak() : LCElutionPeak
• find_within_range() : KDTree< __K, _Val, _Acc, _Dist, _Cmp, _Alloc >
• findBestIsotopeFit_() : FeatureFinderAlgorithmPicked
• findByIndex() : SpectrumLookup
• findByNativeID() : SpectrumLookup
• findByReference() : SpectrumLookup
• findByRegExpMatch_() : SpectrumLookup
• findByRT() : SpectrumLookup
• findByScanNumber() : SpectrumLookup
• findClosestPeak_() : PeakPickerMRM
• findCommonMetaKeys() : MetaInfoInterfaceUtils
• findComponentFeature_() : AbsoluteQuantitationStandards
• findConnectedComponent() : PeptideProteinResolution
• findDatabase() : File
• findDecoyString() : DecoyHelper
• findDoc() : File
• findEntry() : Param::ParamNode
• findEntry_() : TOPPBase
• findEntryRecursive() : Param::ParamNode
• findExecutable() : File
• findFeaturesToMerge() : MS1FeatureMerger
• findFirst() : Param
• findFixedAndTermResidues_() : MRMDecoy
• findFixedResidues() : MRMDecoy
• findFixedResidues_() : MRMDecoy
• findHighestInWindow() : MSSpectrum
• findHit() : ProteinIdentification
• findIndexListOffset() : IndexedMzMLDecoder
• findIsotope_() : FeatureFinderAlgorithmPicked
• findLargestPeak() : MRMTransitionGroupPicker
• findLocalExtrema() : ElutionPeakDetection
• findLocalFeatures_() : FeatureFindingMetabo
• findMatches() : ModificationDefinitionsSet
• findMatchingPeaks_() : TwoDOptimization
• findMaxByIntPeak() : MassTrace
• findMaxima() : PeakPickerMaxima
• findMinimalProteinList() : PSProteinInference
• findModificationIndex() : ModificationsDB
• findMS2Fragment() : MS2ConsensusSpectrum
• findMzKey() : BackgroundControl
• findNearest() : MSChromatogram , MSSpectrum , MZTrafoModel
• findNearestNeighbour_() : GridBasedClustering< Metric >
• findNearestPeak_() : Spectrum2DCanvas
• findNext() : AhoCorasickAmbiguous , Param
• findNode() : Param::ParamNode
• findParentOf() : Param::ParamNode
• findPeakAtPosition_() : Spectrum1DCanvas
• findPeptide() : TransitionHelper
• findPeptideEntry_() : ProteinResolver
• findPosAtPeakHeightPercent_() : PeakIntegrator
• findPythonScript_() : SwathTabWidget
• findR() : RWrapper
• findReferenceChannel_() : IsobaricNormalizer
• findRelevantFilePaths_() : QuantitativeExperimentalDesign
• findScoreType() : IdentificationData , IDScoreSwitcherAlgorithm
• findScript() : RWrapper
• findSearchParameters_() : MzIdentMLDOMHandler
• findSiblingTOPPExecutable() : File
• findStream_() : LogStream
• findTopUniqueHits_() : XFDRAlgorithm
• findTrKey() : BackgroundControl
• findWidestPeakIndices() : MRMTransitionGroupPicker
• findWinner_() : PeakIntensityPredictor
• FineIsotopePatternGenerator() : FineIsotopePatternGenerator
• finishAdding_() : BaseVisualizerGUI , Spectrum1DCanvas , Spectrum2DCanvas , Spectrum3DCanvas , SpectrumCanvas
• finishContextMenu_() : Spectrum2DCanvas
• finishHoveringEdge() : TOPPASScene , TOPPASVertex
• finishTOPPToolExecution() : TOPPViewBase
• firstExec() : TOPPASIOMappingDialog
• firstToUpper() : String , StringUtils
• fit() : EGHTraceFitter , GaussTraceFitter , GammaDistributionFitter , GaussFitter , GumbelDistributionFitter , PosteriorErrorProbabilityModel , TraceFitter
• fit1d() : BiGaussFitter1D , EGHFitter1D , EmgFitter1D , ExtendedIsotopeFitter1D , Fitter1D , GaussFitter1D , IsotopeFitter1D
• fitAndValidateModel_() : ElutionModelFitter
• fitCalibration() : AbsoluteQuantitation
• fitElutionModels() : ElutionModelFitter
• fitEMGPeakModel() : EmgGradientDescent
• fitGumbelGauss() : PosteriorErrorProbabilityModel
• fitLOWESS() : MapAlignmentAlgorithmKD
• fitModel() : TransformationDescription
• fitOffset_() : MaxLikeliFitter1D
• fitPeakShape_() : PeakPickerCWT
• fitRT_() : EmgScoring , FeatureFinderAlgorithmMRM
• Fitter1D() : Fitter1D
• fitWeighted() : GumbelDistributionFitter , GumbelMaxLikelihoodFitter
• fixRange() : Spectrum1DGoToDialog , Spectrum2DGoToDialog
• flipLayer() : Spectrum1DCanvas
• flippedLayersExist() : Spectrum1DCanvas
• floatfield() : BK_PrecPolicy< T >
• flush() : IChromatogramsWriter , ISpectraWriter , LogStream , MSDataSqlConsumer
• focusByTab() : TOPPASBase
• focusInEvent() : OpenMSLineEdit
• focusOutEvent() : OpenMSLineEdit , Spectrum3DOpenGLCanvas , SpectrumCanvas
• followRedirect() : MascotRemoteQuery
• followUpValid() : IsobaricChannelExtractor::PuritySate_
• forwardDump() : HiddenMarkovModel
• forwardTOPPOutput() : TOPPASToolVertex
• FoundProteinFunctor() : PeptideIndexing::FoundProteinFunctor
• FragmentAnnotationDetail_() : RNPxlFragmentAnnotationHelper::FragmentAnnotationDetail_
• fragmentAnnotationDetailsToPHFA() : RNPxlFragmentAnnotationHelper
• FragmentMassError() : FragmentMassError
• fromCellString() : MzTabBoolean , MzTabDouble , MzTabDoubleList , MzTabInteger , MzTabIntegerList , MzTabModification , MzTabModificationList , MzTabParameter , MzTabParameterList , MzTabSpectraRef , MzTabString , MzTabStringList
• fromConsensusMap() : ExperimentalDesign
• fromFeatureMap() : ExperimentalDesign
• fromIdentifications() : ExperimentalDesign
• fromLocalFile() : TOPPASResource
• fromNative_() : StringManager
• fromQStringList() : StringListUtils
• fromString() : AASequence , DataFilters::DataFilter , MultiGradient , NASequence
• front() : ConstRefVector< ContainerT >
• FTPeakDetectController() : FTPeakDetectController
• fullDimensionName() : Peak2D
• fullDimensionNameMZ() : Peak2D
• fullDimensionNameRT() : Peak2D
• fullDimensionUnit() : Peak2D
• fullDimensionUnitMZ() : Peak2D
• fullDimensionUnitRT() : Peak2D
• FullSwathFileConsumer() : FullSwathFileConsumer
• function_() : GlobalExceptionHandler
• Functor() : GumbelMaxLikelihoodFitter::Functor< _Scalar, NX, NY >
• FuzzyStringComparator() : FuzzyStringComparator
• FWHM() : FWHM