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Functions12,842 in github.com/OpenMS/OpenMS

⨍ Functions 12,842◇ Types & classes 2,562

↓ 12 callersMethodgetColumnName

src/openms/source/DATASTRUCTURES/LPWrapper.cpp:416

↓ 12 callersMethodgetConcentration

src/openms/source/METADATA/Sample.cpp:195

↓ 12 callersMethodgetFinalMSExponent

src/openms/source/METADATA/MassAnalyzer.cpp:196

↓ 12 callersMethodgetFlux

src/openms/source/METADATA/HPLC.cpp:87

↓ 12 callersMethodgetIndex

src/openms/source/FORMAT/HANDLERS/FidHandler.cpp:42

↓ 12 callersMethodgetIsOpen

src/openms/include/OpenMS/FORMAT/GzipInputStream.h:88

↓ 12 callersFunctiongetNrChromatograms

Returns the number of spectra available

src/openms/source/INTERFACES_IMPL/MockImplementation.cpp:77

↓ 12 callersMethodgetNumberOfColumns

src/openms/source/DATASTRUCTURES/LPWrapper.cpp:398

↓ 12 callersMethodgetNumberOfFractions

TODO IMHO this is ill-defined and only works if exactly the same identifiers are used across fraction groups. Also, the number of fractions can change

src/openms/source/METADATA/ExperimentalDesign.cpp:524

↓ 12 callersMethodgetPositionRange

src/openms/source/KERNEL/ConsensusFeature.cpp:126

↓ 12 callersMethodgetResolutionType

src/openms/source/METADATA/MassAnalyzer.cpp:96

↓ 12 callersMethodgetScanDirection

src/openms/source/METADATA/MassAnalyzer.cpp:106

↓ 12 callersMethodgetScanLaw

src/openms/source/METADATA/MassAnalyzer.cpp:116

↓ 12 callersMethodgetSigma

src/openms/source/TRANSFORMATIONS/FEATUREFINDER/EGHTraceFitter.cpp:212

↓ 12 callersMethodgetSpecificity

src/openms/source/CHEMISTRY/EnzymaticDigestion.cpp:82

↓ 12 callersMethodgetTargetInParam

src/openms_gui/source/VISUAL/TOPPASEdge.cpp:599

↓ 12 callersMethodgetUnchargedMass

src/openms/source/ANALYSIS/TOPDOWN/FLASHDeconvHelperStructs.cpp:171

↓ 12 callersMethodgetUseTermName

src/openms/source/DATASTRUCTURES/CVMappingTerm.cpp:74

↓ 12 callersMethodgetVolume

src/openms/source/METADATA/Sample.cpp:185

↓ 12 callersMethodindex2key_0

The transformation from "inside" to "outside" coordinates.

src/openms/include/OpenMS/MATH/MISC/BilinearInterpolation.h:535

↓ 12 callersMethodindex2key_1

The transformation from "inside" to "outside" coordinates.

src/openms/include/OpenMS/MATH/MISC/BilinearInterpolation.h:558

↓ 12 callersMethodinferPosteriorProbabilities

src/openms/source/ANALYSIS/ID/BayesianProteinInferenceAlgorithm.cpp:741

↓ 12 callersFunctioninstance_

singleton access to SingletonRegistry

src/openms/include/OpenMS/CONCEPT/SingletonRegistry.h:44

↓ 12 callersMethodisPositive

src/openms/source/ANALYSIS/TOPDOWN/PeakGroup.cpp:983

↓ 12 callersFunctionisValidReference_

src/openms/source/METADATA/ID/IdentificationData.cpp:20

↓ 12 callersFunctionmakeRange

src/tests/class_tests/openms/source/FeatureXMLFile_test.cpp:24

↓ 12 callersMethodnextProgress

src/openms/source/CONCEPT/ProgressLogger.cpp:242

↓ 12 callersMethodoperator()

src/tests/class_tests/openms/source/IDFilter_test.cpp:36

↓ 12 callersMethodquantifyPeptides

src/openms/source/ANALYSIS/QUANTITATION/PeptideAndProteinQuant.cpp:163

↓ 12 callersMethodquantifyProteins

src/openms/source/ANALYSIS/QUANTITATION/PeptideAndProteinQuant.cpp:389

↓ 12 callersMethodrbegin

src/openms/include/OpenMS/DATASTRUCTURES/KDTree.h:1258

↓ 12 callersFunctionreadSpectrumFast

@brief fast access to a spectrum (a direct copy of the data into the provided arrays) @param data1 First data array (m/z) @param data2 Se

src/openms/include/OpenMS/FORMAT/HANDLERS/CachedMzMLHandler.h:114

↓ 12 callersFunctionremoveEmptyIdentifications

src/openms/include/OpenMS/FILTERING/ID/IDFilter.h:744

↓ 12 callersFunctionresetZoom

@brief Zooms fully out and resets the zoom stack Sets the visible area to the initial value, such that all data (for the current spec/chrom/.

src/openms_gui/include/OpenMS/VISUAL/Plot1DCanvas.h:615

↓ 12 callersMethodsetAcquisitionMode

src/openms/source/METADATA/IonDetector.cpp:63

↓ 12 callersMethodsetAverageMass

src/openms/source/CHEMISTRY/ResidueModification.cpp:434

↓ 12 callersMethodsetFileType

src/openms/source/METADATA/SourceFile.cpp:85

↓ 12 callersMethodsetInitialParameters

src/openms/source/MATH/STATISTICS/GaussFitter.cpp:30

↓ 12 callersMethodsetIsRepeatable

src/openms/source/DATASTRUCTURES/CVMappingTerm.cpp:99

↓ 12 callersMethodsetLLOD

src/openms/source/ANALYSIS/QUANTITATION/AbsoluteQuantitationMethod.cpp:52

↓ 12 callersMethodsetLoadConvexHull

src/openms/source/FORMAT/OPTIONS/FeatureFileOptions.cpp:28

↓ 12 callersMethodsetLoadedFileType

src/openms/source/METADATA/DocumentIdentifier.cpp:59

↓ 12 callersMethodsetPathToFile

src/openms/source/METADATA/SourceFile.cpp:65

↓ 12 callersMethodsetSoftware

src/openms/source/METADATA/Instrument.cpp:141

↓ 12 callersMethodsetSourceFile

src/openms/source/METADATA/SpectrumSettings.cpp:147

↓ 12 callersMethodsetUseTermName

src/openms/source/DATASTRUCTURES/CVMappingTerm.cpp:69

↓ 12 callersFunctiontoInt32

src/openms/include/OpenMS/DATASTRUCTURES/StringUtils.h:201

↓ 12 callersFunctiontoInt64

src/openms/include/OpenMS/DATASTRUCTURES/StringUtils.h:58

↓ 12 callersFunctiontoPepVec

src/tests/class_tests/openms/source/PeptideIndexing_test.cpp:34

↓ 12 callersFunctionvisualizeAll_

src/openms_gui/include/OpenMS/VISUAL/MetaDataBrowser.h:218

↓ 12 callersMethodwriteChromatograms

src/openms/source/FORMAT/HANDLERS/MzMLSqliteHandler.cpp:1198

↓ 11 callersMethodDataValue

src/openms/source/DATASTRUCTURES/DataValue.cpp:26

↓ 11 callersMethodFilterFeatureMap

src/openms/source/ANALYSIS/OPENSWATH/MRMFeatureFilter.cpp:48

↓ 11 callersFunctionSTART_SECTION

src/tests/class_tests/openms/source/QTCluster_test.cpp:190

↓ 11 callersFunctionSTART_SECTION

src/tests/class_tests/openms/source/MassTrace_test.cpp:212

↓ 11 callersMethodTraMLFile

src/openms/source/FORMAT/TraMLFile.cpp:20

↓ 11 callersMethodTransformationDescription

src/openms/source/ANALYSIS/MAPMATCHING/TransformationDescription.cpp:23

↓ 11 callersFunction_testParam

@tests: Param Param.__init__ Param.addTag Param.addTags Param.asDict Param.clearTags Param.copy Param.exists

src/pyOpenMS/tests/unittests/test000.py:1345

↓ 11 callersFunction_testStrOutput

src/pyOpenMS/tests/unittests/test000.py:23

↓ 11 callersMethodaddNeedle

src/openms/source/ANALYSIS/ID/AhoCorasickAmbiguous.cpp:54

↓ 11 callersMethodaddRow

src/openms/source/FORMAT/CsvFile.cpp:42

↓ 11 callersMethodclearMetaDataArrays

@brief Clears the meta data arrays of all contained spectra (float, integer and string arrays) @return @em true if meta data arrays were present an

src/openms/source/KERNEL/MSExperiment.cpp:446

↓ 11 callersMethodclone

Docu in base class

src/openms_gui/include/OpenMS/VISUAL/ANNOTATION/Annotation1DCaret.h:178

↓ 11 callersMethodcluster

src/openms/source/TRANSFORMATIONS/FEATUREFINDER/MultiplexClustering.cpp:145

↓ 11 callersMethodcomputeRegressionWeighted

src/openms/source/MATH/STATISTICS/LinearRegression.cpp:238

↓ 11 callersMethodempty

src/openms/source/SYSTEM/File.cpp:138

↓ 11 callersFunctionextractDouble

src/openms/source/FORMAT/SqliteConnector.cpp:260

↓ 11 callersMethodfilterExperiment

src/openms/source/FILTERING/SMOOTHING/GaussFilter.cpp:143

↓ 11 callersMethodfindMatches

src/openms/source/CHEMISTRY/ModificationDefinitionsSet.cpp:318

↓ 11 callersMethodfromFileDialogFilter

src/openms/source/FORMAT/FileTypes.cpp:124

↓ 11 callersMethodgetAllChildTerms

src/openms/source/FORMAT/ControlledVocabulary.cpp:442

↓ 11 callersMethodgetCPUTime

src/openms/source/SYSTEM/StopWatch.cpp:248

↓ 11 callersMethodgetCharge

@name Accessors @{ Returns the charge (for element 0 or 1)

src/openms/source/DATASTRUCTURES/ChargePair.cpp:75

↓ 11 callersMethodgetChargeRange

src/openms/source/METADATA/ProteinIdentification.cpp:188

↓ 11 callersMethodgetChargeSNR

src/openms/source/ANALYSIS/TOPDOWN/PeakGroup.cpp:956

↓ 11 callersMethodgetColumnType

src/openms/source/DATASTRUCTURES/LPWrapper.cpp:363

↓ 11 callersMethodgetColumnValue

src/openms/source/DATASTRUCTURES/LPWrapper.cpp:676

↓ 11 callersMethodgetCutOff

get cutoff value

src/openms/include/OpenMS/TRANSFORMATIONS/FEATUREFINDER/BaseModel.h:97

↓ 11 callersMethodgetDriftTimeWindowLowerOffset

src/openms/source/METADATA/Precursor.cpp:176

↓ 11 callersMethodgetDriftTimeWindowUpperOffset

src/openms/source/METADATA/Precursor.cpp:187

↓ 11 callersMethodgetFactors

src/openms/source/METADATA/ExperimentalDesign.cpp:779

↓ 11 callersMethodgetForceMQCompatability

src/openms/source/FORMAT/OPTIONS/PeakFileOptions.cpp:63

↓ 11 callersMethodgetIsolationWidth

src/openms/source/METADATA/MassAnalyzer.cpp:186

↓ 11 callersMethodgetLowerRTBound

src/tests/class_tests/openms/source/TraceFitter_test.cpp:33

↓ 11 callersMethodgetNominalMass

Calculate the nominal (integer) mass from double mass. Multiplying 0.999497 to the original mass and then rounding reduce the error between the origin

src/openms/source/ANALYSIS/TOPDOWN/FLASHDeconvAlgorithm.cpp:55

↓ 11 callersMethodgetNrConnectedComponents

src/openms/source/ANALYSIS/ID/IDBoostGraph.cpp:1675

↓ 11 callersMethodgetNumberOfFixedModifications

src/openms/source/CHEMISTRY/ModificationDefinitionsSet.cpp:48

↓ 11 callersMethodgetNumberOfStates

src/openms/source/ANALYSIS/ID/HiddenMarkovModel.cpp:301

↓ 11 callersMethodgetObjective

src/openms/source/DATASTRUCTURES/LPWrapper.cpp:722

↓ 11 callersMethodgetPathLabelToSampleMapping

src/openms/source/METADATA/ExperimentalDesign.cpp:447

↓ 11 callersMethodgetRepAbsCharge

src/openms/source/ANALYSIS/TOPDOWN/PeakGroup.cpp:878

↓ 11 callersMethodgetScanRate

src/openms/source/METADATA/MassAnalyzer.cpp:156

↓ 11 callersMethodgetSpectrumMetaData

src/openms/source/METADATA/SpectrumMetaDataLookup.cpp:15

↓ 11 callersFunctiongetTolWindow

@brief Return tolerance window around @p val given tolerance @p tol Note that when ppm is used, the window is not symmetric. In this case,

src/openms/include/OpenMS/MATH/MISC/MathFunctions.h:342

↓ 11 callersMethodhasIntensityRange

src/openms/source/FORMAT/OPTIONS/PeakFileOptions.cpp:126

↓ 11 callersMethodhasRTRange

src/openms/source/FORMAT/OPTIONS/PeakFileOptions.cpp:94

↓ 11 callersMethodhasSection

src/openms/source/DATASTRUCTURES/Param.cpp:1646

↓ 11 callersMethodhasUnit

src/openms/source/METADATA/CVTerm.cpp:91

↓ 11 callersFunctioninsert

src/openms/include/OpenMS/KERNEL/Mobilogram.h:203

↓ 11 callersMethodinsertCalibrationPoint

src/openms/source/DATASTRUCTURES/CalibrationData.cpp:77

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