Here is a list of all class members with links to the classes they belong to:
- f -
- f
: Base64::Reinterpreter64_
, Base64::Reinterpreter32_
, IsotopeWavelet::fi_
- f_cf_ids_
: MzQuantMLHandler
- f_entry_
: EdwardsLippertIterator
, TrypticIterator
- f_f_obj_
: MzQuantMLHandler
- f_file_
: EdwardsLippertIterator
, TrypticIterator
- F_HULL
: LayerData
- F_HULLS
: LayerData
- f_iterator_
: EdwardsLippertIterator
, TrypticIterator
- f_max_
: PrecursorIonSelectionPreprocessing
- f_observed_Mass
: LCElutionPeak
- F_UNASSIGNED
: LayerData
- FA
: IonSource
- FAB
: IonSource
- factor_
: SpectrumCheapDPCorr
, ParentPeakMower
- Factory()
: Factory< FactoryProduct >
- FactoryType
: Factory< FactoryProduct >
- FailedAPICall()
: FailedAPICall
- false_discovery_rate
: MzTabMetaData
- FalseDiscoveryRate()
: FalseDiscoveryRate
- fapex_intensity
: LCElutionPeak
- far_
: Spectrum3DOpenGLCanvas
- FARADAYCUP
: IonDetector
- FASTA
: FileTypes
- fasta_entry
: ProteinResolver::ProteinEntry
- fasta_file_
: FastaIterator
, FastaIteratorIntern
- FASTA_header_
: BigString
- FASTAEntry
: EdwardsLippertIterator
, PepIterator
, TrypticIterator
, BigString
, SuffixArrayPeptideFinder
, FastaIterator
, FastaIteratorIntern
, FASTAFile::FASTAEntry
- FASTAFile()
: FASTAFile
- FastaIterator()
: FastaIterator
- FastaIteratorIntern()
: FastaIteratorIntern
- fatal_streams_
: LogConfigHandler
- fatalError()
: XMLHandler
, XMLValidator
- fCentroidPeaks
: CentroidData
- fCharge
: LCElutionPeak
- FD
: IonSource
- fDeconvPeaks
: Deisotoper
- FeaFiModule()
: FeaFiModule< PeakType >
- FEASIBLE
: LPWrapper
- feat_score_
: FeatureHypothesis
- Feature()
: Feature
- feature
: PSLPFormulation::IndexTriple
- Feature()
: Feature
- feature0_charge_
: ChargePair
- feature0_index_
: ChargePair
- feature1_charge_
: ChargePair
- feature1_index_
: ChargePair
- feature_
: FeatureOpenMS
, GridFeature
, FeatureEditDialog
- feature_distance_
: QTClusterFinder
- FEATURE_GROUPING
: DataProcessing
- feature_ID
: SHFeature
- FEATURE_ID_MULTIPLE_DIVERGENT
: BaseFeature
- FEATURE_ID_MULTIPLE_SAME
: BaseFeature
- FEATURE_ID_NONE
: BaseFeature
- FEATURE_ID_SINGLE
: BaseFeature
- feature_index_
: GridFeature
- feature_list
: LCMS
- feature_map_
: MRMFeature
- feature_maps_
: MSQuantifications::Assay
, MSQuantifications
, MSSim
- feature_match_status
: SHFeature
- feature_max
: SvmTheoreticalSpectrumGenerator::SvmModelParameterSet
- feature_min
: SvmTheoreticalSpectrumGenerator::SvmModelParameterSet
- FeatureDeconvolution()
: FeatureDeconvolution
- FeatureDistance()
: FeatureDistance
- FeatureEditDialog()
: FeatureEditDialog
- featureExtraInformation
: SHFeature
- FeatureFileOptions()
: FeatureFileOptions
- FeatureFinder()
: FeatureFinder
- FeatureFinderAlgorithm()
: FeatureFinderAlgorithm
- FeatureFinderAlgorithmIsotopeWavelet()
: FeatureFinderAlgorithmIsotopeWavelet
- FeatureFinderAlgorithmMRM()
: FeatureFinderAlgorithmMRM
- FeatureFinderAlgorithmPicked()
: FeatureFinderAlgorithmPicked
- FeatureFinderAlgorithmSH()
: FeatureFinderAlgorithmSH
- FeatureFinderAlgorithmSHCtrl
: SuperHirnParameters
, FeatureFinderAlgorithmSHCtrl
- FeatureFindingMetabo()
: FeatureFindingMetabo
- FeatureGroupingAlgorithm()
: FeatureGroupingAlgorithm
- FeatureGroupingAlgorithmIdentification()
: FeatureGroupingAlgorithmIdentification
- FeatureGroupingAlgorithmLabeled()
: FeatureGroupingAlgorithmLabeled
- FeatureGroupingAlgorithmQT()
: FeatureGroupingAlgorithmQT
- FeatureGroupingAlgorithmUnlabeled()
: FeatureGroupingAlgorithmUnlabeled
- FeatureHandle()
: FeatureHandle
- FeatureHandleMutable_()
: FeatureHandle::FeatureHandleMutable_
- FeatureHypothesis()
: FeatureHypothesis
- FeatureIterator_
: LayerStatisticsDialog
- FeatureLCProfile()
: FeatureLCProfile
- FeatureListType
: MRMFeature
- FeatureMap()
: FeatureMap
- FeatureMapSharedPtrType
: TOPPViewBase
, LayerData
, SpectrumCanvas
, TOPPViewIdentificationViewBehavior
, TOPPViewSpectraViewBehavior
- FeatureMapType
: FeatureDeconvolution
, TOPPViewBase
, LayerData
, SpectrumCanvas
, SpectrumWidget
, TOPPViewIdentificationViewBehavior
, TOPPViewSpectraViewBehavior
- FeatureOpenMS()
: FeatureOpenMS
- features
: LayerData
- features_
: MRMFeatureOpenMS
, MRMFeature
, FeaFiModule< PeakType >
, FeatureFinderAlgorithm
- FeatureType
: MRMScoring
, FeatureDeconvolution
, FeatureMap
, SpectrumCanvas
- FeatureType_
: ILPDCWrapper
- FEATUREXML
: FileTypes
- FeatureXMLFile()
: FeatureXMLFile
- fEndTR
: LCElutionPeak
- ff_
: FeaFiModule< PeakType >
, FeatureFinderAlgorithm
- FI
: IonSource
- FIB
: IonSource
- FidHandler()
: FidHandler
- field
: DataFilters::DataFilter
- field_changed_()
: DataFilterDialog
- FII
: IonSource
- FILE
: StreamHandler
- file_
: BaseException
, Bzip2Ifstream
, XMLHandler
, GlobalExceptionHandler
- file_current_index_
: Bzip2InputStream
, GzipInputStream
- file_description_
: ConsensusMap
- file_name
: TOPPViewBase
- file_name_
: ListEditorDelegate
, TOPPASResource
, TOPPASScene
- file_path_
: DocumentIdentifier
, DocumentIdentifierVisualizer
- file_size_
: SourceFile
, SourceFileVisualizer
- file_stream_
: CSVWriter
- file_type_
: DocumentIdentifier
, SourceFile
, DocumentIdentifierVisualizer
, SourceFileVisualizer
- fileChanged()
: FileWatcher
- fileChanged_()
: TOPPViewBase
- FileDescription()
: ConsensusMap::FileDescription
- FileDescriptions
: ConsensusMap
- FileEmpty()
: FileEmpty
- fileList()
: File
- filename
: ConsensusMap::FileDescription
, LayerData
- filename_
: SpectrumAccessOpenMSCached
, IndexedMzMLFile
, XMLValidator
, OnDiscMSExperiment< PeakT, ChromatogramPeakT >
, INIFileEditorWindow
, ToolsDialog
, TOPPASToolConfigDialog
- fileName_
: ParamEditorDelegate
- filename_cached_
: SpectrumAccessOpenMSCached
- filenames
: TOPPASVertex::VertexRoundPackage
- fileNamesValid()
: TOPPASInputFileListVertex
- fileNameValid()
: TOPPASInputFileDialog
- FileNotFound()
: FileNotFound
- FileNotReadable()
: FileNotReadable
- FileNotWritable()
: FileNotWritable
- fileOpen()
: QApplicationTOPP
- files_total_
: TOPPASOutputFileListVertex
- files_written_
: TOPPASOutputFileListVertex
- filestream_
: IndexedMzMLFile
- FileWatcher()
: FileWatcher
- fill_data_
: PeakFileOptions
- fillChromatogramData_()
: MzMLHandler< MapType >
- fillComboBox_()
: BaseVisualizerGUI
- fillComboBoxes_()
: TOPPASIOMappingDialog
- fillData_()
: MzDataHandler< MapType >
- fillDensities()
: PosteriorErrorProbabilityModel
- fillExtendedResidueTable_()
: IntegerMassDecomposer< ValueType, DecompositionValueType >
- fillFromInputLine()
: FuzzyStringComparator::StreamElement_
- fillInputVector_()
: IsobaricIsotopeCorrector
- fillIntensities()
: BaseModel< D >
- fillIntensity()
: BaseModel< D >
- fillLeft()
: String
, StringUtils
- fillRight()
: String
, StringUtils
- filter()
: MorphologicalFilter
, GaussFilter
, GaussFilterAlgorithm
, SavitzkyGolayFilter
, MultiplexFilteringCentroided
, MultiplexFilteringProfile
- filter_
: DataFilterDialog
- filter_dock_widget_
: TOPPViewBase
- filter_passed
: FoundProteinFunctor
- filter_rejected
: FoundProteinFunctor
- filter_threshold_
: PeptideIdentificationVisualizer
, ProteinIdentificationVisualizer
- filterByPeakWidth()
: ElutionPeakDetection
- filterContextMenu()
: TOPPViewBase
- filterDecomps_()
: CompNovoIdentificationBase
- filterDeisotopicMSPeak()
: ProcessData
- filterDetectability()
: DetectabilitySimulation
- filterEdit()
: TOPPViewBase
- filterExperiment()
: GaussFilter
, SavitzkyGolayFilter
, MorphologicalFilter
- FilterFunctor()
: FilterFunctor
- filterHits_()
: MetaDataBrowser
- filterIdentificationsByBestHits()
: IDFilter
- filterIdentificationsByBestNHits()
: IDFilter
- filterIdentificationsByBestNToMHits()
: IDFilter
- filterIdentificationsByCharge()
: IDFilter
- filterIdentificationsByDecoy()
: IDFilter
- filterIdentificationsByExclusionPeptides()
: IDFilter
- filterIdentificationsByLength()
: IDFilter
- filterIdentificationsByMetaValueRange()
: IDFilter
- filterIdentificationsByMZ()
: IDFilter
- filterIdentificationsByMzError()
: IDFilter
- filterIdentificationsByProteins()
: IDFilter
- filterIdentificationsByRT()
: IDFilter
- filterIdentificationsByRTFirstDimPValues()
: IDFilter
- filterIdentificationsByRTPValues()
: IDFilter
- filterIdentificationsByScore()
: IDFilter
- filterIdentificationsByScores()
: IDFilter
- filterIdentificationsByThreshold()
: IDFilter
- filterIdentificationsByThresholds()
: IDFilter
- filterIdentificationsByVariableModifications()
: IDFilter
- filterIdentificationsUnique()
: IDFilter
- FILTERING
: DataProcessing
- FilterOperation
: DataFilters
- filterPeakMap()
: BernNorm
, MarkerMower
, NLargest
, Normalizer
, ParentPeakMower
, Scaler
, SqrtMower
, ThresholdMower
, WindowMower
- filterPeakSpectrum()
: WindowMower
, BernNorm
, MarkerMower
, NLargest
, Normalizer
, ParentPeakMower
, Scaler
, SqrtMower
, ThresholdMower
- filterPeakSpectrumForTopNInJumpingWindow()
: WindowMower
- filterPeakSpectrumForTopNInSlidingWindow()
: WindowMower
- filterPeptideIds_()
: PrecursorIonSelection
- filterPermuts_()
: CompNovoIdentificationBase
- filterProtIds_()
: PrecursorIonSelection
- filterRange()
: MorphologicalFilter
- filters
: LayerData
- filters_
: DataFilters
, TOPPViewBase
- filters_check_box_
: TOPPViewBase
- filterSpectrum()
: Scaler
, MarkerMower
, BernNorm
, NLargest
, Normalizer
, ParentPeakMower
, SqrtMower
, ThresholdMower
- filterTaxonomyIdentifier_()
: PrecursorIonSelectionPreprocessing
- FilterType
: DataFilters
- final_MS_
: MassAnalyzerVisualizer
- final_MS_exponent_
: MassAnalyzer
- find()
: File
- find_AC()
: MS2Info
- find_all_tryptic()
: MRMDecoy
- find_closest_mz_match()
: ProcessData
- find_feature_by_ID()
: LCMS
- find_LC_MS_by_ID()
: LCMS
- find_match_by_id()
: SHFeature
- find_Modification()
: MS2Info
- find_retention_time()
: ProcessData
- find_true_peak()
: LCElutionPeak
- findBestIsotopeFit_()
: FeatureFinderAlgorithmPicked
- findClosestPeak_()
: PeakPickerMRM
- findDatabase()
: File
- findDoc()
: File
- findEntry()
: Param::ParamNode
- findEntry_()
: TOPPBase
- findEntryRecursive()
: Param::ParamNode
- findExecutable()
: File
- findFeaturesToMerge()
: MS1FeatureMerger
- findFirst()
: Param
- findFirst_()
: SuffixArraySeqan
, SuffixArrayTrypticCompressed
, SuffixArraySeqan
- findHit()
: ProteinIdentification
- findIndexListOffset()
: IndexedMzMLDecoder
- findIsotope_()
: FeatureFinderAlgorithmPicked
- findLargestPeak()
: MRMTransitionGroupPicker
- findLocalExtrema()
: ElutionPeakDetection
- findLocalFeatures_()
: FeatureFindingMetabo
- findMatchingPeaks_()
: TwoDOptimization
- findMaxByIntPeak()
: MassTrace
- findMaxima()
: PeakPickerMaxima
- findMinimalProteinList()
: PSProteinInference
- findModificationIndex()
: ModificationsDB
- findMS2Fragment()
: MS2ConsensusSpectrum
- findMzKey()
: BackgroundControl
- findNearest()
: MSSpectrum< PeakT >
, MSChromatogram< PeakT >
- findNearestNeighbour_()
: GridBasedClustering< Metric >
- findNearestPeak_()
: Spectrum2DCanvas
- findNext()
: Param
- findNode()
: Param::ParamNode
- findParentOf()
: Param::ParamNode
- findPeakAtPosition_()
: Spectrum1DCanvas
- findPeptide()
: TransitionHelper
- findPeptideEntry_()
: ProteinResolver
- findReferenceChannel_()
: IsobaricNormalizer
- findRelevantFilePaths_()
: QuantitativeExperimentalDesign
- findSearchParameters_()
: MzIdentMLDOMHandler
- findSpec()
: SuffixArray
, SuffixArraySeqan
, SuffixArrayTrypticCompressed
- findStream_()
: LogStream
- findTrKey()
: BackgroundControl
- findWinner_()
: PeakIntensityPredictor
- finishAdding_()
: Spectrum1DCanvas
, Spectrum3DCanvas
, SpectrumCanvas
, BaseVisualizerGUI
, Spectrum2DCanvas
- finishContextMenu_()
: Spectrum2DCanvas
- finished_
: TOPPASVertex
- finishHoveringEdge()
: TOPPASScene
, TOPPASVertex
- finishTOPPToolExecution()
: TOPPViewBase
- first
: ProbablePhosphoSites
- first_
: SignalToNoiseEstimator< Container >
, AreaIterator< ValueT, ReferenceT, PointerT, SpectrumIteratorT, PeakIteratorT >
- first_column_
: FuzzyStringComparator
- first_name_
: ContactPerson
- FIRST_STABILITY_REGION
: Instrument
- firstExec()
: TOPPASIOMappingDialog
- firstname_
: ContactPersonVisualizer
- firstToUpper()
: String
, StringUtils
- fIsotopMass
: LCElutionPeak
- fit()
: GumbelDistributionFitter
, PosteriorErrorProbabilityModel
, GammaDistributionFitter
, GaussFitter
, EGHTraceFitter
, TraceFitter
, GaussTraceFitter
, PosteriorErrorProbabilityModel
- fit1d()
: EGHFitter1D
, BiGaussFitter1D
, GaussFitter1D
, IsotopeFitter1D
, EmgFitter1D
, ExtendedIsotopeFitter1D
, Fitter1D
- fitModel()
: TransformationDescription
, MapAlignmentAlgorithm
- fitOffset_()
: MaxLikeliFitter1D
- fitPeakShape_()
: PeakPickerCWT
- fitRT_()
: FeatureFinderAlgorithmMRM
, EmgScoring
- fittedIntensity_
: CentroidPeak
- Fitter1D()
: Fitter1D
- fitter_emg1D_
: EmgScoring
- FIXED
: LPWrapper
- fixed_mod
: MzIdentMLDOMHandler::ModificationParam
, MzTabMetaData
- fixed_modification_
: ModificationDefinition
- fixed_modifications
: ProteinIdentification::SearchParameters
- fixed_modifications_
: PepXMLFileMascot
, PepXMLFile
, PrecursorIonSelectionPreprocessing
- fixed_mods_
: ModificationDefinitionsSet
, PrecursorIonSelectionPreprocessing
- fixRange()
: Spectrum1DGoToDialog
, Spectrum2DGoToDialog
- flag
: MapAlignmentAlgorithmSpectrumAlignment::Compare
- Flag
: FeatureFinderDefs
- flag
: QcMLFile::QualityParameter
- FLAG
: ParameterInformation
- flags
: LayerData
- Flags
: LayerData
- flags_
: FeatureFinder
, Annotation1DTextItem
- flipLayer()
: Spectrum1DCanvas
- flipped
: LayerData
- flipped_y_axis_
: Spectrum1DWidget
- flippedLayersExist()
: Spectrum1DCanvas
- fload()
: CsvFile
- FLOAT
: ListEditor
- float_data_arrays_
: MSSpectrum< PeakT >
, MSChromatogram< PeakT >
- FloatDataArrays
: FeatureFinderAlgorithmPicked
, MSSpectrum< PeakT >
, MSChromatogram< PeakT >
, FeatureFinderAlgorithmMRM
- floats_32
: MzMLHandlerHelper::BinaryData
- floats_64
: MzMLHandlerHelper::BinaryData
- FloatsWithTolLess()
: FloatsWithTolLess
- FLOWINJECTIONANALYSIS
: IonSource
- flush()
: IChromatogramsWriter
, LogStream
, ISpectraWriter
- flux_
: HPLC
- fMinPeakGroupSize
: Deisotoper
- fMonoMass
: LCElutionPeak
- fNoise
: CentroidData
- fNrIsotopes
: LCElutionPeak
- FOCALPLANEARRAY
: IonDetector
- FOCALPLANECOLLECTOR
: IonDetector
- focusByTab()
: TOPPASBase
- focusInEvent()
: OpenMSLineEdit
- focusOutEvent()
: Spectrum3DOpenGLCanvas
, SpectrumCanvas
, OpenMSLineEdit
- followRedirect()
: MascotRemoteQuery
- followUpScan
: IsobaricChannelExtractor::PuritySate_
- followUpValid()
: IsobaricChannelExtractor::PuritySate_
- force_constraints_
: FeatureDistance
- form_version_
: MascotInfile
- format
: MzTabMSRunMetaData
- format_
: SaveImageDialog
- FORMAT_CONVERSION
: DataProcessing
- FORMAT_GLPK
: LPWrapper
- FORMAT_LP
: LPWrapper
- FORMAT_MPS
: LPWrapper
- formula
: AccurateMassSearchEngine::MappingEntry_
- formula_
: Residue
, ResidueModification
, Adduct
, EmpiricalFormula
- forward_
: HiddenMarkovModel
- forwardDump()
: HiddenMarkovModel
- forwardTOPPOutput()
: TOPPASToolVertex
- found_adduct_
: AccurateMassSearchResult
- found_precursor_charge_
: SpectralMatch
- found_precursor_mass_
: SpectralMatch
- FoundProteinFunctor()
: FoundProteinFunctor
- FOURIERTRANSFORM
: MassAnalyzer
- FOURPLEX
: ItraqConstants
- fpeak_area
: LCElutionPeak
- fPeakGroupStart
: CentroidData
- fraction_counter_
: PrecursorIonSelection
- fraction_identifier_
: ExperimentalSettings
, ExperimentalSettingsVisualizer
- fragment_charge
: TransitionTSVReader::TSVTransition
- fragment_lower_mz_
: XTandemInfile
- fragment_mass_error_unit_
: XTandemInfile
- fragment_mass_tolerance_
: XTandemInfile
, CompNovoIdentificationBase
, CompNovoIonScoringBase
- fragment_mass_type_
: XTandemInfile
- fragment_modification
: TransitionTSVReader::TSVTransition
- fragment_mz_error_
: MetaboliteSpectralMatching
- fragment_mzdelta
: TransitionTSVReader::TSVTransition
- fragment_nr
: TransitionTSVReader::TSVTransition
- fragment_tolerance
: MzIdentMLDOMHandler::SpectrumIdentificationProtocol
- fragment_type
: TransitionTSVReader::TSVTransition
- fragmentation_method
: MzTabMSRunMetaData
- FragmentationType
: ProtonDistributionModel
- fragmentMZ
: MS2Fragment
- frame_size_
: SavitzkyGolayFilter
- freq_
: IonDetectorVisualizer
- FRINGING_FIELD
: Instrument
- from_
: TOPPASEdge
- from_max_to_left_
: IsotopeWaveletTransform< PeakType >
- from_max_to_right_
: IsotopeWaveletTransform< PeakType >
- fromCellString()
: MzTabIntegerList
, MzTabModificationList
, MzTabBoolean
, MzTabDouble
, MzTabNullAbleInterface
, MzTabDoubleList
, MzTabInteger
, MzTabParameter
, MzTabSpectraRef
, MzTabStringList
, MzTabModification
, MzTabString
, MzTabParameterList
- fromLocalFile()
: TOPPASResource
- fromQStringList()
: StringListUtils
- fromString()
: MultiGradient
, AASequence
, DataFilters::DataFilter
- front()
: ConstRefVector< ContainerT >
- front_boxes_
: IsotopeWaveletTransform< PeakType >
- fRT
: LCElutionPeak
- fScanNumber
: Deisotoper
- fScanNumberApex
: LCElutionPeak
- fScanNumberEnd
: LCElutionPeak
- fScanNumberStart
: LCElutionPeak
- fScanRetentionTime
: CentroidData
- fShortReportFlag
: Deisotoper
- fSignalToNoise
: LCElutionPeak
- fSNIntensityThreshold
: LCElutionPeak
- fStartTR
: LCElutionPeak
- fTheta
: Deisotoper
- FTPeakDetectController()
: FTPeakDetectController
- fulfilled_
: SemanticValidator
- Full
: Residue
- full_id_
: ResidueModification
- full_name
: MzTabCVMetaData
- full_name_
: ResidueModification
- FULL_SQ
: MS2Info
- fullDimensionName()
: Peak2D
- fullDimensionNameMZ()
: Peak2D
- fullDimensionNameRT()
: Peak2D
- fullDimensionUnit()
: Peak2D
- fullDimensionUnitMZ()
: Peak2D
- fullDimensionUnitRT()
: Peak2D
- fullname
: CV
- FullPeptideName
: TransitionTSVReader::TSVTransition
- FullSwathFileConsumer()
: FullSwathFileConsumer
- function_()
: GlobalExceptionHandler
, BaseException
- FunctionType
: Factory< FactoryProduct >
- FuzzyStringComparator()
: FuzzyStringComparator
- fVolume
: LCElutionPeak
- FWHM
: MassAnalyzer
- fwhm_
: MassTrace
- fwhm_bound_
: PeakPickerCWT
- fwhm_end_idx_
: MassTrace
- fwhm_start_idx_
: MassTrace
- fWindowWidth
: CentroidData