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3.6.0
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Here is a list of all files with brief descriptions:
[detail level
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►
CometAdapter
►
include
CometModification.h
CometNativeIDRemapper.h
►
source
CometModification.cpp
CometAdapter.cpp
►
DecoyDatabase
►
include
NeighborSeq.h
►
source
NeighborSeq.cpp
DecoyDatabase.cpp
►
DIAuditor
►
include
DIAQCMetrics.h
►
source
DIAQCMetrics.cpp
DIAuditor.cpp
►
doc
►
doxygen
►
install
common-cmake-parameters.doxygen
install-linux.doxygen
install-macs.doxygen
install-testing-openms.doxygen
install-vcpkg.doxygen
install-win.doxygen
►
public
Changelog.doxygen
commit_messages.doxygen
developer_coding_conventions.doxygen
developer_cpp_guide.doxygen
developer_faq.doxygen
developer_how_to_write_tests.doxygen
developer_tutorial.doxygen
ExternalCode.doxygen
GlycanFragmentation.doxygen
Main.doxygen
Modules.doxygen
PyOpenMS.doxygen
TargetedQuantitation.doxygen
TOPP.doxygen
TOPPAS.doxygen
user_FAQ.doxygen
►
GUITOOLS
ExecutePipeline.cpp
ImageCreator.cpp
INIFileEditor.cpp
TOPPAS.cpp
TOPPView.cpp
►
INIUpdater
►
include
INIUpdater.h
►
source
INIUpdater.cpp
INIUpdater.cpp
►
MISC
QApplicationTOPP.cpp
►
MS1LabeledWorkflow
MS1LabeledFAIMS.cpp
MS1LabeledFAIMS.h
MS1LabeledRatioQuantifier.cpp
MS1LabeledRatioQuantifier.h
MS1LabeledSpectra.cpp
MS1LabeledSpectra.h
MS1LabeledWorkflow.cpp
►
NucleicAcidSearchEngine
►
include
ModifiedNASequenceGenerator.h
►
source
ModifiedNASequenceGenerator.cpp
NucleicAcidSearchEngine.cpp
►
OpenMS
►
ANALYSIS
►
DECHARGING
FeatureDeconvolution.h
ILPDCWrapper.h
MetaboliteFeatureDeconvolution.h
►
ID
AccurateMassSearchEngine.h
AhoCorasickAmbiguous.h
AScore.h
BasicProteinInferenceAlgorithm.h
BayesianProteinInferenceAlgorithm.h
ConsensusIDAlgorithm.h
ConsensusIDAlgorithmAverage.h
ConsensusIDAlgorithmBest.h
ConsensusIDAlgorithmIdentity.h
ConsensusIDAlgorithmPEPIons.h
ConsensusIDAlgorithmPEPMatrix.h
ConsensusIDAlgorithmRanks.h
ConsensusIDAlgorithmSimilarity.h
ConsensusIDAlgorithmWorst.h
ConsensusMapMergerAlgorithm.h
FalseDiscoveryRate.h
FIAMSDataProcessor.h
FIAMSScheduler.h
FragmentIndex.h
HyperScore.h
IDBoostGraph.h
IDConflictResolverAlgorithm.h
IDDecoyProbability.h
IDMapper.h
IDMergerAlgorithm.h
IDRipper.h
IDScoreGetterSetter.h
IDScoreSwitcherAlgorithm.h
IonIdentityMolecularNetworking.h
MessagePasserFactory.h
MetaboliteSpectralMatching.h
MorpheusScore.h
OpenSearchModificationAnalysis.h
PeptideIndexing.h
PeptideProteinResolution.h
Percolator.h
PercolatorFeatureSetHelper.h
PercolatorTypes.h
PrecursorPurity.h
ProSEAlgorithm.h
PScore.h
Scores.h
SimpleSearchEngineAlgorithm.h
SiriusExportAlgorithm.h
SiriusMSConverter.h
►
MAPMATCHING
BaseGroupFinder.h
BaseSuperimposer.h
ConsensusMapNormalizerAlgorithmMedian.h
ConsensusMapNormalizerAlgorithmQuantile.h
ConsensusMapNormalizerAlgorithmThreshold.h
FeatureDistance.h
FeatureGroupingAlgorithm.h
FeatureGroupingAlgorithmKD.h
FeatureGroupingAlgorithmLabeled.h
FeatureGroupingAlgorithmQT.h
FeatureGroupingAlgorithmUnlabeled.h
FeatureGroupingAlgorithmWNet.h
FeatureMapping.h
LabeledPairFinder.h
MapAlignmentAlgorithmIdentification.h
MapAlignmentAlgorithmKD.h
MapAlignmentAlgorithmPoseClustering.h
MapAlignmentAlgorithmTreeGuided.h
MapAlignmentEvaluationAlgorithm.h
MapAlignmentEvaluationAlgorithmPrecision.h
MapAlignmentEvaluationAlgorithmRecall.h
MapAlignmentTransformer.h
PipEchoAlgorithm.h
PoseClusteringAffineSuperimposer.h
PoseClusteringShiftSuperimposer.h
QTClusterFinder.h
StablePairFinder.h
TransformationDescription.h
TransformationModel.h
TransformationModelBSpline.h
TransformationModelDefaults.h
TransformationModelInterpolated.h
TransformationModelLinear.h
TransformationModelLowess.h
WNetMatcher.h
►
MRM
ReactionMonitoringTransition.h
►
OPENSWATH
►
DATAACCESS
DataAccessHelper.h
MRMFeatureAccessOpenMS.h
SimpleOpenMSSpectraAccessFactory.h
SpectrumAccessOpenMS.h
SpectrumAccessOpenMSCached.h
SpectrumAccessOpenMSInMemory.h
SpectrumAccessQuadMZTransforming.h
SpectrumAccessSqMass.h
SpectrumAccessTransforming.h
CalibrationWorkflow.h
ChromatogramExtractor.h
ChromatogramExtractorAlgorithm.h
ConfidenceScoring.h
DIAHelper.h
DIAPrescoring.h
DIAScoring.h
IonMobilityScoring.h
LevelContextInference.h
MasstraceCorrelator.h
MRMAssay.h
MRMBatchFeatureSelector.h
MRMDecoy.h
MRMFeatureFilter.h
MRMFeatureFinderScoring.h
MRMFeaturePicker.h
MRMFeatureQC.h
MRMFeatureSelector.h
MRMIonSeries.h
MRMRTNormalizer.h
MRMScoring.h
MRMTransitionGroupPicker.h
OpenSwathExportConfig.h
OpenSwathExportData.h
OpenSwathHelper.h
OpenSwathInferenceConfig.h
OpenSwathInferenceData.h
OpenSwathLibraryIDNormalizer.h
OpenSwathMatrixExporter.h
OpenSwathOSWParquetReader.h
OpenSwathOSWParquetWriter.h
OpenSwathOSWWriter.h
OpenSwathParquetExporter.h
OpenSwathPercolatorScoring.h
OpenSwathResultsExporter.h
OpenSwathScores.h
OpenSwathScoring.h
OpenSwathWorkflow.h
OpenSwathWorkflowScheduler.h
PeakIntegrator.h
PeakMapExtractor.h
PeakPickerChromatogram.h
PeakPickerMobilogram.h
SpectrumAddition.h
SwathMapMassCorrection.h
SwathQC.h
SwathWindowLoader.h
TargetedSpectraExtractor.h
TransitionListEvidenceFilter.h
TransitionParquetFile.h
TransitionPQPFile.h
TransitionTSVFile.h
►
QUANTITATION
AbsoluteQuantitation.h
AbsoluteQuantitationMethod.h
DDAWorkflowCommons.h
IsobaricChannelExtractor.h
IsobaricIsotopeCorrector.h
IsobaricNormalizer.h
IsobaricQuantifier.h
IsobaricQuantifierStatistics.h
IsobaricQuantitationMethod.h
IsotopeLabelingMDVs.h
ItraqConstants.h
ItraqEightPlexQuantitationMethod.h
ItraqFourPlexQuantitationMethod.h
KDTreeFeatureMaps.h
KDTreeFeatureNode.h
PeptideAndProteinQuant.h
TMTEighteenPlexQuantitationMethod.h
TMTElevenPlexQuantitationMethod.h
TMTSixPlexQuantitationMethod.h
TMTSixteenPlexQuantitationMethod.h
TMTTenPlexQuantitationMethod.h
TMTThirtyFivePlexQuantitationMethod.h
TMTThirtyTwoPlexQuantitationMethod.h
►
SEQUENCE
NeedlemanWunsch.h
►
TARGETED
ChromatogramProcessor.h
DefaultChromHandler.h
DIAChromHandler.h
IChromatogramHandler.h
IncludeExcludeTarget.h
MetaboTargetedAssay.h
MetaboTargetedTargetDecoy.h
MRMChromHandler.h
MRMMapping.h
TargetedExperiment.h
TargetedExperimentHelper.h
►
TOPDOWN
DeconvolvedSpectrum.h
FLASHDeconvAlgorithm.h
FLASHHelperClasses.h
MassFeatureTrace.h
PeakGroup.h
PeakGroupScoring.h
Qvalue.h
SpectralDeconvolution.h
TopDownIsobaricQuantification.h
►
XLMS
OpenPepXLAlgorithm.h
OPXLDataStructs.h
OPXLHelper.h
OPXLSpectrumProcessingAlgorithms.h
XFDRAlgorithm.h
XQuestScores.h
►
APPLICATIONS
ConsoleUtils.h
►
CHEMISTRY
►
ISOTOPEDISTRIBUTION
CoarseIsotopePatternGenerator.h
FineIsotopePatternGenerator.h
IsoSpecWrapper.h
IsotopeDistribution.h
IsotopePatternGenerator.h
►
MASSDECOMPOSITION
►
IMS
IMSAlphabet.h
IMSAlphabetParser.h
IMSAlphabetTextParser.h
IMSElement.h
IMSIsotopeDistribution.h
IntegerMassDecomposer.h
MassDecomposer.h
RealMassDecomposer.h
Weights.h
MassDecomposition.h
MassDecompositionAlgorithm.h
AAIndex.h
AASequence.h
AdductInfo.h
BuiltInProteaseDataProvider.h
CrossLinksDB.h
DecoyGenerator.h
DigestionEnzyme.h
DigestionEnzymeDataProvider.h
DigestionEnzymeDB.h
DigestionEnzymeProtein.h
DigestionEnzymeRNA.h
Element.h
ElementDB.h
EmpiricalFormula.h
EnzymaticDigestion.h
EnzymeXMLDataProvider.h
GlycanStructure.h
HydrophobicityProfile.h
IonNaming.h
IsoelectricPoint.h
ModificationDataProvider.h
ModificationDefinition.h
ModificationDefinitionsSet.h
ModificationsDB.h
ModifiedPeptideGenerator.h
ModomicsJSONDataProvider.h
MonosaccharideDB.h
MzPAF.h
NASequence.h
NucleicAcidSpectrumGenerator.h
OBODataProvider.h
ProForma.h
ProteaseDB.h
ProteaseDigestion.h
Residue.h
ResidueDB.h
ResidueModification.h
Ribonucleotide.h
RibonucleotideDataProvider.h
RibonucleotideDB.h
RibonucleotideTSVDataProvider.h
RNaseDB.h
RNaseDigestion.h
SequenceCoverage.h
SimpleTSGXLMS.h
SpectrumAnnotator.h
Tagger.h
TheoreticalGlycanSpectrumGenerator.h
TheoreticalSpectrumGenerator.h
TheoreticalSpectrumGeneratorXLMS.h
UnimodXMLDataProvider.h
►
COMPARISON
BinnedSharedPeakCount.h
BinnedSpectralContrastAngle.h
BinnedSpectrumCompareFunctor.h
BinnedSumAgreeingIntensities.h
PeakAlignment.h
PeakSpectrumCompareFunctor.h
SpectraSTSimilarityScore.h
SpectrumAlignment.h
SpectrumAlignmentScore.h
SpectrumCheapDPCorr.h
SpectrumPrecursorComparator.h
SteinScottImproveScore.h
ZhangSimilarityScore.h
►
CONCEPT
Colorizer.h
CommonEnums.h
Constants.h
EnumHelpers.h
Exception.h
GlobalExceptionHandler.h
HashUtils.h
Helpers.h
Init.h
LogConfigHandler.h
LogStream.h
Macros.h
PrecisionWrapper.h
ProgressLogger.h
RAIICleanup.h
StreamHandler.h
Types.h
UniqueIdGenerator.h
UniqueIdIndexer.h
UniqueIdInterface.h
VersionInfo.h
►
DATASTRUCTURES
►
Utils
MapUtilities.h
Adduct.h
BinaryTreeNode.h
CalibrationData.h
ChargePair.h
Compomer.h
ConstRefVector.h
ConvexHull2D.h
CVMappingRule.h
CVMappings.h
CVMappingTerm.h
CVReference.h
DataValue.h
Date.h
DateTime.h
DBoundingBox.h
DefaultParamHandler.h
DIntervalBase.h
DistanceMatrix.h
DPosition.h
DRange.h
ExposedVector.h
FASTAContainer.h
FlagSet.h
GridFeature.h
IsotopeCluster.h
KDTree.h
ListUtils.h
ListUtilsIO.h
LPWrapper.h
MassExplainer.h
MatchedIterator.h
Matrix.h
MatrixEigen.h
OSWData.h
Param.h
ParamTags.h
ParamValue.h
QTCluster.h
StringListUtils.h
StringUtils.h
ToolDescription.h
ToolInfo.h
TypeAliases.h
►
FEATUREFINDER
BaseModel.h
BaseModel_impl.h
BiGaussFitter1D.h
BiGaussModel.h
Biosaur2Algorithm.h
EGHTraceFitter.h
ElutionModelFitter.h
ElutionPeakDetection.h
EmgFitter1D.h
EmgModel.h
EmgScoring.h
ExtendedIsotopeFitter1D.h
ExtendedIsotopeModel.h
FeatureFinderAlgorithm.h
FeatureFinderAlgorithmMetaboIdent.h
FeatureFinderAlgorithmPicked.h
FeatureFinderAlgorithmPickedHelperStructs.h
FeatureFinderDefs.h
FeatureFinderIdentificationAlgorithm.h
FeatureFinderMultiplexAlgorithm.h
FeatureFindingMetabo.h
Fitter1D.h
GaussFitter1D.h
GaussModel.h
GaussTraceFitter.h
InterpolationModel.h
IsotopeFitter1D.h
IsotopeModel.h
LevMarqFitter1D.h
MassTraceDetection.h
MaxLikeliFitter1D.h
ModelDescription.h
MultiplexClustering.h
MultiplexDeltaMasses.h
MultiplexDeltaMassesGenerator.h
MultiplexFilteredMSExperiment.h
MultiplexFilteredPeak.h
MultiplexFiltering.h
MultiplexFilteringCentroided.h
MultiplexFilteringProfile.h
MultiplexIsotopicPeakPattern.h
MultiplexResolverAlgorithm.h
MultiplexSatelliteCentroided.h
MultiplexSatelliteProfile.h
PeakWidthEstimator.h
SeedListGenerator.h
TraceFitter.h
►
FORMAT
►
DATAACCESS
MobilogramParquetConsumer.h
MSChromatogramParquetConsumer.h
MSDataAggregatingConsumer.h
MSDataCachedConsumer.h
MSDataChainingConsumer.h
MSDataSqlConsumer.h
MSDataStoringConsumer.h
MSDataTransformingConsumer.h
MSDataWritingConsumer.h
NoopMSDataConsumer.h
SiriusFragmentAnnotation.h
SwathFileConsumer.h
XIPMParquetConsumer.h
►
HANDLERS
AcqusHandler.h
CachedMzMLHandler.h
ConsensusXMLHandler.h
FeatureXMLHandler.h
FidHandler.h
ImzMLHandler.h
ImzMLHandlerHelper.h
ImzMLWriter.h
IndexedMzMLDecoder.h
IndexedMzMLHandler.h
MascotXMLHandler.h
MzDataHandler.h
MzIdentMLDOMHandler.h
MzIdentMLHandler.h
MzMLHandler.h
MzMLHandlerHelper.h
MzMLSpectrumDecoder.h
MzMLSqliteHandler.h
MzMLSqliteSwathHandler.h
MzXMLHandler.h
ParamXMLHandler.h
PASEFHillCentroider.h
PTMXMLHandler.h
SAX2HandlerAdapter.h
StringManager.h
ThermoRawFileMetadata.h
TraMLHandler.h
UnimodXMLHandler.h
XMLAttributes.h
XMLHandler.h
XQuestResultXMLHandler.h
►
MSNUMPRESS
MSNumpress.h
►
OPTIONS
FeatureFileOptions.h
PeakFileOptions.h
►
VALIDATORS
MzDataValidator.h
MzIdentMLValidator.h
MzMLValidator.h
SemanticValidator.h
TraMLValidator.h
XMLValidator.h
AbsoluteQuantitationMethodFile.h
AbsoluteQuantitationStandardsFile.h
ArrowIOHelpers.h
ArrowSchemaRegistry.h
Base64.h
BrukerTimsFile.h
BrukerTimsImagingFile.h
Bzip2Ifstream.h
Bzip2InputStream.h
CachedMzML.h
ChromeleonFile.h
CompressedInputSource.h
ConsensusMapArrowExport.h
ConsensusMapArrowIO.h
ConsensusXMLFile.h
ControlledVocabulary.h
CsvFile.h
CVMappingFile.h
DTA2DFile.h
DTAFile.h
EDTAFile.h
ExperimentalDesignFile.h
FASTAFile.h
FeatureMapArrowIO.h
FeatureXMLFile.h
FileHandler.h
FileInfo.h
FileNameUtils.h
FileTypes.h
FLASHDeconvFeatureFile.h
FLASHDeconvSpectrumFile.h
GNPSMetaValueFile.h
GNPSMGFFile.h
GNPSQuantificationFile.h
GzipIfstream.h
GzipInputStream.h
HDF5Connector.h
IBSpectraFile.h
IdXMLFile.h
ImzMLFile.h
IndentedStream.h
IndexedMzMLFileLoader.h
InspectInfile.h
InspectOutfile.h
KroenikFile.h
MascotGenericFile.h
MascotRemoteQuery.h
MascotXMLFile.h
ModificationDefinitionIO.h
MRMFeaturePickerFile.h
MRMFeatureQCFile.h
MRMFile.h
MS2File.h
MSExperimentArrowExport.h
MsInspectFile.h
MSNumpressCoder.h
MSPFile.h
MSPGenericFile.h
MSstatsFile.h
MzDataFile.h
MzIdentMLFile.h
MzMLFile.h
MzQCFile.h
MzTab.h
MzTabBase.h
MzTabFile.h
MzTabM.h
MzTabMFile.h
MzXMLFile.h
OMSFile.h
OMSFileLoad.h
OMSFileStore.h
OMSSACSVFile.h
OMSSAXMLFile.h
OSWFile.h
ParamCTDFile.h
ParamCWLFile.h
ParamJSONFile.h
ParamXMLFile.h
ParquetFile.h
ParquetFilter.h
ParquetTableComparator.h
PeakTypeEstimator.h
PEFFFile.h
PepNovoInfile.h
PepNovoOutfile.h
PepXMLFile.h
PepXMLFileMascot.h
PercolatorInfile.h
PercolatorOutfile.h
ProteinGroupArrowExport.h
ProteinGroupArrowExport_impl.h
ProteinIdentificationArrowIO.h
ProtXMLFile.h
PSMArrowIO.h
PTMXMLFile.h
QcMLFile.h
QPXCollectionExport.h
QPXFile.h
QPXIdentity.h
QPXValueValidation.h
RationalScan2ImConverter.h
SequestInfile.h
SequestOutfile.h
SpecArrayFile.h
SqliteConnector.h
SqliteConnector_impl.h
SqMassFile.h
SVOutStream.h
SwathFile.h
TargetedDataFileLoader.h
TextFile.h
ThermoRawFile.h
TraMLFile.h
TransformationXMLFile.h
UnimodXMLFile.h
XICParquetFile.h
XIMParquetFile.h
XIPMParquetFile.h
XMassFile.h
XMLFile.h
XQuestResultXMLFile.h
XTandemInfile.h
XTandemXMLFile.h
ZipArchiveFile.h
ZipIfstream.h
ZipInputStream.h
ZipRandomAccessFile.h
ZlibCompression.h
ZstdCompression.h
►
IMAGING
IonImage.h
IonImageExtraction.h
MSImagingExperiment.h
MSImagingGeometry.h
MSImagingRegion.h
►
INTERFACES
DataStructures.h
IMSDataConsumer.h
ISpectrumAccess.h
►
IONMOBILITY
FAIMSHelper.h
IMDataArrayUtils.h
IMDataConverter.h
IMTypes.h
►
KERNEL
AreaIterator.h
BaseFeature.h
BinnedSpectrum.h
ChromatogramPeak.h
ChromatogramRangeManager.h
ChromatogramTools.h
ConsensusFeature.h
ConsensusMap.h
ConversionHelper.h
DimMapper.h
DPeak.h
Feature.h
FeatureHandle.h
FeatureMap.h
MassTrace.h
MobilityPeak1D.h
MobilityPeak2D.h
Mobilogram.h
MRMFeature.h
MRMTransitionGroup.h
MSChromatogram.h
MSExperiment.h
MSSpectrum.h
OnDiscImzMLExperiment.h
OnDiscMSExperiment.h
Peak1D.h
Peak2D.h
PeakIndex.h
PeakTypeEstimator.h
RangeManager.h
RangeUtils.h
RichPeak2D.h
SpectrumHelper.h
SpectrumRangeManager.h
StandardTypes.h
►
MATH
►
MISC
BSpline2d.h
BSplineSmoothingSpline.h
CubicSpline2d.h
EmgGradientDescent.h
LinearResampling.h
SplineBisection.h
►
STATISTICS
BasicStatistics.h
GammaDistributionFitter.h
GaussFitter.h
GumbelDistributionFitter.h
GumbelMaxLikelihoodFitter.h
Histogram.h
KernelDensityEstimation.h
MultipleTesting.h
PosteriorErrorProbabilityModel.h
RankData.h
MathFunctions.h
StatisticFunctions.h
►
METADATA
►
ID
AppliedProcessingStep.h
DBSearchParam.h
IdentificationData.h
IdentificationDataConverter.h
IdentifiedCompound.h
IdentifiedMolecule.h
IdentifiedSequence.h
InputFile.h
MetaData.h
Observation.h
ObservationMatch.h
ObservationMatchGroup.h
ParentGroup.h
ParentMatch.h
ParentSequence.h
ProcessingSoftware.h
ProcessingStep.h
ScoredProcessingResult.h
ScoreType.h
AbsoluteQuantitationStandards.h
Acquisition.h
AcquisitionInfo.h
AnnotatedMSRun.h
ChromatogramSettings.h
ContactPerson.h
CVTerm.h
CVTermList.h
CVTermListInterface.h
DataArrays.h
DataProcessing.h
DataProcessingUtils.h
DocumentIdentifier.h
ExperimentalDesign.h
ExperimentalSettings.h
Gradient.h
HPLC.h
IdentifierMSRunMapper.h
Instrument.h
InstrumentSettings.h
IonDetector.h
IonSource.h
MassAnalyzer.h
MetaInfo.h
MetaInfoDescription.h
MetaInfoInterface.h
MetaInfoInterfaceUtils.h
MetaInfoRegistry.h
MS1LabelState.h
PeptideEvidence.h
PeptideHit.h
PeptideIdentification.h
PeptideIdentificationList.h
Precursor.h
Product.h
ProteinHit.h
ProteinIdentification.h
ProteinModificationSummary.h
Sample.h
ScanWindow.h
Software.h
SourceFile.h
SpectrumLookup.h
SpectrumMetaDataLookup.h
SpectrumNativeIDParser.h
SpectrumSettings.h
USI.h
►
ML
►
CLUSTERING
AverageLinkage.h
ClusterAnalyzer.h
ClusterFunctor.h
ClusterHierarchical.h
ClusteringGrid.h
CompleteLinkage.h
EuclideanSimilarity.h
GridBasedCluster.h
GridBasedClustering.h
HashGrid.h
SingleLinkage.h
►
CROSSVALIDATION
CrossValidation.h
►
GRIDSEARCH
GridSearch.h
►
INTERPOLATION
BilinearInterpolation.h
LinearInterpolation.h
►
NNLS
NNLS.h
NonNegativeLeastSquaresSolver.h
►
ONNX
ONNXPredictorBase.h
►
PEPTDEEP
PeptDeepCCSInference.h
PeptDeepInput.h
PeptDeepMS2Inference.h
PeptDeepRTInference.h
PeptDeepUtils.h
►
RANSAC
RANSAC.h
RANSACModel.h
RANSACModelLinear.h
RANSACModelQuadratic.h
►
REGRESSION
LinearRegression.h
LinearRegressionWithoutIntercept.h
QuadraticRegression.h
►
ROCCURVE
ROCCurve.h
►
SVM
SimpleSVM.h
►
PROCESSING
►
BASELINE
MorphologicalFilter.h
►
CALIBRATION
InternalCalibration.h
MZTrafoModel.h
PrecursorCorrection.h
►
CENTROIDING
PeakPickerHiRes.h
PeakPickerIM.h
PeakPickerIterative.h
►
DEISOTOPING
Deisotoper.h
►
FEATURE
FeatureOverlapFilter.h
►
FILTERING
NLargest.h
ThresholdMower.h
WindowMower.h
►
ID
IDFilter.h
►
MISC
DataFilters.h
SplineInterpolatedPeaks.h
SplinePackage.h
►
NOISEESTIMATION
SignalToNoiseEstimator.h
SignalToNoiseEstimatorMeanIterative.h
SignalToNoiseEstimatorMedian.h
SignalToNoiseEstimatorMedianRapid.h
►
RESAMPLING
LinearResamplerAlign.h
►
SCALING
Normalizer.h
RankScaler.h
SqrtScaler.h
►
SMOOTHING
FastLowessSmoothing.h
GaussFilter.h
GaussFilterAlgorithm.h
LowessSmoothing.h
ModifiedSincSmoother.h
SavitzkyGolayFilter.h
►
SPECTRAMERGING
SpectraMerger.h
►
QC
DBSuitability.h
FeatureSummary.h
IdentificationSummary.h
MissedCleavages.h
Ms2IdentificationRate.h
PSMExplainedIonCurrent.h
QCBase.h
SpectrumCount.h
TIC.h
►
SYSTEM
BuildInfo.h
CurlInit.h
ExternalProcess.h
File.h
JavaInfo.h
Network.h
NetworkGetRequest.h
PathUtils.h
PythonInfo.h
RWrapper.h
SIMDe.h
StopWatch.h
SysInfo.h
SystemSettings.h
TempFiles.h
UpdateCheck.h
►
OpenMS
►
APPLICATIONS
MapAlignerBase.h
OpenSwathBase.h
ParameterInformation.h
SearchEngineBase.h
ToolHandler.h
TOPPBase.h
TOPPBase_defs.h
TOPPExternalToolBase.h
►
OpenMS
►
VISUAL
►
ANNOTATION
Annotation1DCaret.h
Annotation1DDistanceItem.h
Annotation1DItem.h
Annotation1DPeakItem.h
Annotation1DTextItem.h
Annotation1DVerticalLineItem.h
Annotations1DContainer.h
►
APPLICATIONS
►
MISC
QApplicationTOPP.h
INIFileEditorWindow.h
TOPPASBase.h
TOPPViewBase.h
►
DIALOGS
DataFilterDialog.h
FeatureEditDialog.h
HistogramDialog.h
LayerStatisticsDialog.h
ListFilterDialog.h
Plot1DGoToDialog.h
Plot1DPrefDialog.h
Plot2DGoToDialog.h
Plot2DPrefDialog.h
Plot3DPrefDialog.h
SaveImageDialog.h
SpectrumAlignmentDialog.h
TheoreticalSpectrumGenerationDialog.h
ToolsDialog.h
TOPPASInputFileDialog.h
TOPPASInputFilesDialog.h
TOPPASIOMappingDialog.h
TOPPASOutputFilesDialog.h
TOPPASToolConfigDialog.h
TOPPASVertexNameDialog.h
TOPPViewOpenDialog.h
TOPPViewPrefDialog.h
►
INTERFACES
IPeptideIds.h
►
MISC
CommonDefs.h
ExternalProcessMBox.h
FilterableList.h
GUIHelpers.h
InteractiveSplashScreen.h
Qt5Port.h
►
VISITORS
LayerStatistics.h
LayerStoreData.h
►
VISUALIZER
AcquisitionInfoVisualizer.h
AcquisitionVisualizer.h
BaseVisualizer.h
BaseVisualizerGUI.h
ContactPersonVisualizer.h
DataProcessingVisualizer.h
DocumentIdentifierVisualizer.h
ExperimentalSettingsVisualizer.h
GradientVisualizer.h
HPLCVisualizer.h
InstrumentSettingsVisualizer.h
InstrumentVisualizer.h
IonDetectorVisualizer.h
IonSourceVisualizer.h
MassAnalyzerVisualizer.h
MetaInfoDescriptionVisualizer.h
MetaInfoVisualizer.h
PeptideHitVisualizer.h
PeptideIdentificationVisualizer.h
PrecursorVisualizer.h
ProductVisualizer.h
ProteinHitVisualizer.h
ProteinIdentificationVisualizer.h
SampleVisualizer.h
ScanWindowVisualizer.h
SoftwareVisualizer.h
SourceFileVisualizer.h
SpectrumSettingsVisualizer.h
AxisPainter.h
AxisTickCalculator.h
AxisWidget.h
ColorSelector.h
DataSelectionTabs.h
DIATreeTab.h
EnhancedTabBar.h
EnhancedTabBarWidgetInterface.h
EnhancedWorkspace.h
FileWatcher.h
FilterList.h
GUIProgressLoggerImpl.h
HistogramWidget.h
InputFile.h
InputFileList.h
LayerData1DBase.h
LayerData1DChrom.h
LayerData1DIonMobility.h
LayerData1DPeak.h
LayerDataBase.h
LayerDataChrom.h
LayerDataConsensus.h
LayerDataFeature.h
LayerDataIdent.h
LayerDataIonMobility.h
LayerDataPeak.h
LayerListView.h
ListEditor.h
LogWindow.h
MetaDataBrowser.h
MultiGradient.h
MultiGradientSelector.h
OutputDirectory.h
Painter1DBase.h
Painter2DBase.h
PainterBase.h
ParamEditor.h
Plot1DCanvas.h
Plot1DWidget.h
Plot2DCanvas.h
Plot2DWidget.h
Plot3DCanvas.h
Plot3DOpenGLCanvas.h
Plot3DWidget.h
PlotCanvas.h
PlotWidget.h
RecentFilesMenu.h
SequenceVisualizer.h
SpectraIDViewTab.h
SpectraTreeTab.h
TableView.h
TOPPASEdge.h
TOPPASInputFileListVertex.h
TOPPASMergerVertex.h
TOPPASOutputFileListVertex.h
TOPPASOutputFolderVertex.h
TOPPASOutputVertex.h
TOPPASResource.h
TOPPASResources.h
TOPPASScene.h
TOPPASSplitterVertex.h
TOPPASToolVertex.h
TOPPASTreeView.h
TOPPASVertex.h
TOPPASWidget.h
TOPPViewMenu.h
TreeView.h
TVControllerBase.h
TVDIATreeTabController.h
TVIdentificationViewController.h
TVSpectraViewController.h
TVToolDiscovery.h
►
OpenMS
►
OPENSWATHALGO
►
ALGO
Scoring.h
StatsHelpers.h
►
DATAACCESS
DataFrameWriter.h
DataStructures.h
ISpectrumAccess.h
ITransition.h
MockObjects.h
SpectrumHelpers.h
SwathMap.h
TransitionExperiment.h
TransitionHelper.h
Transitions.h
Macros.h
►
OpenMS
►
CONCEPT
ClassTest.h
ClassTestUtils.h
FuzzyStringComparator.h
MacrosTest.h
►
OpenMS
TestFileValidation.h
►
OpenNuXL
►
include
NuXLAnnotateAndLocate.h
NuXLAnnotatedHit.h
NuXLConstants.h
NuXLDeisotoper.h
NuXLFDR.h
NuXLFragmentAdductDefinition.h
NuXLFragmentAnnotationHelper.h
NuXLFragmentIonGenerator.h
NuXLMarkerIonExtractor.h
NuXLModificationsGenerator.h
NuXLParameterParsing.h
NuXLPresets.h
NuXLReport.h
►
source
NuXLAnnotateAndLocate.cpp
NuXLDeisotoper.cpp
NuXLFDR.cpp
NuXLFragmentAdductDefinition.cpp
NuXLFragmentAnnotationHelper.cpp
NuXLFragmentIonGenerator.cpp
NuXLMarkerIonExtractor.cpp
NuXLModificationsGenerator.cpp
NuXLParameterParsing.cpp
NuXLPresets.cpp
NuXLReport.cpp
OpenNuXL.cpp
►
OpenSwathExport
OpenSwathExport.cpp
►
OpenSwathInfer
►
include
OpenSwathGeneInference.h
OpenSwathPeptideInference.h
OpenSwathPeptidoformInference.h
OpenSwathProteinInference.h
►
source
OpenSwathGeneInference.cpp
OpenSwathPeptideInference.cpp
OpenSwathPeptidoformInference.cpp
OpenSwathProteinInference.cpp
OpenSwathInfer.cpp
►
OpenSwathPeakMapExtractor
OpenSwathPeakMapExtractor.cpp
►
OpenSwathPercolatorScoring
OpenSwathPercolatorScoring.cpp
►
OpenSwathWorkflow
OpenSwathWorkflow.cpp
►
ParquetDiff
ParquetDiff.cpp
►
QualityControl
►
include
Contaminants.h
FragmentMassError.h
FWHM.h
MQEvidenceExporter.h
MQExporterHelper.h
MQMsmsExporter.h
Ms2SpectrumStats.h
MzCalibration.h
PeptideMass.h
RTAlignment.h
►
source
Contaminants.cpp
FragmentMassError.cpp
FWHM.cpp
MQEvidenceExporter.cpp
MQExporterHelper.cpp
MQMsmsExporter.cpp
Ms2SpectrumStats.cpp
MzCalibration.cpp
PeptideMass.cpp
RTAlignment.cpp
QualityControl.cpp
►
UniPEFF
►
include
UniProtXMLFile.h
UniProtXMLHandler.h
►
source
UniProtXMLFile.cpp
UniProtXMLHandler.cpp
UniPEFF.cpp
INIFileEditorWindow.cpp
TOPPASBase.cpp
TOPPViewBase.cpp
AccurateMassSearch.cpp
AssayGeneratorMetabo.cpp
AssayGeneratorMetaboSirius.cpp
BaselineFilter.cpp
ClusterMassTraces.cpp
ClusterMassTracesByPrecursor.cpp
ConsensusID.cpp
ConsensusMapNormalizer.cpp
CVInspector.cpp
DatabaseFilter.cpp
DatabaseSuitability.cpp
Decharger.cpp
DeMeanderize.cpp
Digestor.cpp
DigestorMotif.cpp
DTAExtractor.cpp
EICExtractor.cpp
Epifany.cpp
ExternalCalibration.cpp
FalseDiscoveryRate.cpp
FeatureFinderCentroided.cpp
FeatureFinderIdentification.cpp
FeatureFinderLFQ.cpp
FeatureFinderMetabo.cpp
FeatureFinderMetaboIdent.cpp
FeatureFinderMultiplex.cpp
FeatureLinkerBase.cpp
FeatureLinkerLabeled.cpp
FeatureLinkerUnlabeled.cpp
FeatureLinkerUnlabeledKD.cpp
FeatureLinkerUnlabeledQT.cpp
FeatureLinkerWNet.cpp
FileConverter.cpp
FileFilter.cpp
FileInfo.cpp
FileMerger.cpp
FLASHDeconv.cpp
FuzzyDiff.cpp
GNPSExport.cpp
HighResPrecursorMassCorrector.cpp
IDConflictResolver.cpp
IDDecoyProbability.cpp
IDExtractor.cpp
IDFileConverter.cpp
IDFilter.cpp
IDMapper.cpp
IDMerger.cpp
IDPosteriorErrorProbability.cpp
IDRipper.cpp
IDRTCalibration.cpp
IDScoreSwitcher.cpp
IDSplitter.cpp
InternalCalibration.cpp
IonMobilityBinning.cpp
IsobaricAnalyzer.cpp
IsobaricWorkflow.cpp
JSONExporter.cpp
LuciphorAdapter.cpp
MapAlignerIdentification.cpp
MapAlignerPoseClustering.cpp
MapAlignerTreeGuided.cpp
MapNormalizer.cpp
MapRTTransformer.cpp
MapStatistics.cpp
MaRaClusterAdapter.cpp
MascotAdapterOnline.cpp
MassCalculator.cpp
MassTraceExtractor.cpp
MetaboliteAdductDecharger.cpp
MetaboliteSpectralMatcher.cpp
MetaProSIP.cpp
MRMMapper.cpp
MRMPairFinder.cpp
MRMTransitionGroupPicker.cpp
MSFraggerAdapter.cpp
MSGFPlusAdapter.cpp
MSstatsConverter.cpp
MultiplexResolver.cpp
MzMLSplitter.cpp
MzTabExporter.cpp
NoiseFilterGaussian.cpp
NoiseFilterSGolay.cpp
NovorAdapter.cpp
OpenMSDatabasesInfo.cpp
OpenMSInfo.cpp
OpenPepXL.cpp
OpenSwathAnalyzer.cpp
OpenSwathAssayGenerator.cpp
OpenSwathChromatogramExtractor.cpp
OpenSwathConfidenceScoring.cpp
OpenSwathDecoyGenerator.cpp
OpenSwathDIAPreScoring.cpp
OpenSwathFeatureXMLToTSV.cpp
OpenSwathFileSplitter.cpp
OpenSwathMzMLFileCacher.cpp
OpenSwathRewriteToFeatureXML.cpp
OpenSwathRTNormalizer.cpp
ParquetConverter.cpp
PeakPickerHiRes.cpp
PeakPickerIM.cpp
PeakPickerIterative.cpp
PeptideIndexer.cpp
PercolatorAdapter.cpp
PhosphoScoring.cpp
ProSE.cpp
ProteinInference.cpp
ProteinQuantifier.cpp
ProteomicsLFQ.cpp
PSMFeatureExtractor.cpp
QCCalculator.cpp
QCEmbedder.cpp
QCExporter.cpp
QCExtractor.cpp
QCImporter.cpp
QCMerger.cpp
QCShrinker.cpp
Resampler.cpp
RNADigestor.cpp
RNAMassCalculator.cpp
RNPxlXICFilter.cpp
SageAdapter.cpp
SeedListGenerator.cpp
SemanticValidator.cpp
SequenceCoverageCalculator.cpp
SimpleSearchEngine.cpp
SiriusExport.cpp
SpectraFilterNLargest.cpp
SpectraFilterNormalizer.cpp
SpectraFilterThresholdMower.cpp
SpectraFilterWindowMower.cpp
SpectraMerger.cpp
SpectraSTSearchAdapter.cpp
StaticModification.cpp
TargetedFileConverter.cpp
TextExporter.cpp
TICCalculator.cpp
TransitionListEvidenceFilter.cpp
XFDR.cpp
XMLValidator.cpp
Generated on Wed Sep 30 2026 02:31:12 for OpenMS by
1.9.8