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Here is a list of all class members with links to the classes they belong to:
- s -
S :
ExtendedIsotopeModel
,
IsotopeModel
,
LmaIsotopeModel
,
LmaIsotopeFitter1D
s_ :
SuffixArraySeqan
,
SuffixArrayTrypticCompressed
sa_ :
SuffixArrayPeptideFinder
Sample() :
Sample
sample_ :
ExperimentalSettings
samplecomment_ :
SampleVisualizer
sampleconcentration_ :
SampleVisualizer
samplemass_ :
SampleVisualizer
samplename_ :
SampleVisualizer
SAMPLENULL :
Sample
samplenumber_ :
SampleVisualizer
sampleorganism_ :
SampleVisualizer
SampleState :
Sample
samplestate_ :
SampleVisualizer
SamplesType :
BaseModel
,
InterpolationModel
,
ProductModel
sampleTheWavelet_() :
IsotopeWaveletTransform
SampleTreatment() :
SampleTreatment
SampleVisualizer() :
SampleVisualizer
samplevolume_ :
SampleVisualizer
save() :
SuffixArray
,
SuffixArraySeqan
,
SuffixArrayTrypticCompressed
save_() :
XMLFile
saveAll_() :
MSMetaDataExplorer
saveallbutton_ :
MSMetaDataExplorer
saveCurrentLayer() :
Spectrum1DCanvas
,
Spectrum2DCanvas
,
Spectrum3DCanvas
,
SpectrumCanvas
saveFile() :
INIFileEditorWindow
saveFileAs() :
INIFileEditorWindow
SaveImageDialog() :
SaveImageDialog
saveModel() :
SVMWrapper
savePreferences() :
TOPPViewBase
SavitzkyGolayFilter() :
SavitzkyGolayFilter
sc_charge_ :
ProtonDistributionModel
sc_charge_full_ :
ProtonDistributionModel
scale_ :
LinearInterpolation
,
ProductModel
,
ContinuousWaveletTransform
,
PeakPickerCWT
,
AxisWidget
scale_0_ :
BilinearInterpolation
scale_1_ :
BilinearInterpolation
scale_factor_ :
LmaGaussFitter1D
,
LmaGaussModel
scaleData() :
SVMWrapper
scaledIntensity() :
Spectrum3DOpenGLCanvas
scaledInversMZ() :
Spectrum3DOpenGLCanvas
scaledInversRT() :
Spectrum3DOpenGLCanvas
scaledMZ() :
Spectrum3DOpenGLCanvas
scaledRT() :
Spectrum3DOpenGLCanvas
Scaler() :
Scaler
SCALING :
PoseClusteringAffineSuperimposer
scaling_ :
InterpolationModel
scaling_bounding_box_ :
PoseClusteringAffineSuperimposer
scaling_bucket_size_ :
PoseClusteringAffineSuperimposer
scan_direction_ :
MassAnalyzer
scan_function_ :
MassAnalyzer
scan_law_ :
MassAnalyzer
scan_mode_ :
InstrumentSettings
scan_rate_ :
MassAnalyzer
scan_time_ :
MassAnalyzer
ScanDirection :
MassAnalyzer
SCANDIRNULL :
MassAnalyzer
SCANFCTNULL :
MassAnalyzer
ScanFunction :
MassAnalyzer
ScanLaw :
MassAnalyzer
SCANLAWNULL :
MassAnalyzer
ScanMode :
InstrumentSettings
SCANMODENULL :
InstrumentSettings
scans_ :
IsotopeCluster
SCENE :
BasePairFinder
,
BaseSuperimposer
,
DelaunayPairFinder
,
PoseClusteringAffineSuperimposer
,
PoseClusteringPairwiseMapMatcher
,
PoseClusteringShiftSuperimposer
,
SimplePairFinder
,
StarAlignment
scene_map_partners_ :
PoseClusteringAffineSuperimposer
schema_location_ :
XMLFile
schema_version_ :
XMLFile
score :
IsotopeWaveletTransform::BoxElement_
score_ :
PeptideHit
,
ProteinHit
score_clas_pairs_ :
ROCCurve
score_type_ :
InspectOutfile
,
PeptideIdentification
,
PeptideIdentificationVisualizer
,
ProteinIdentificationVisualizer
scoreThis_() :
IsotopeWaveletTransform
search() :
TextFile
search_engine_ :
ProteinIdentification
search_engine_version_ :
ProteinIdentification
search_parameters_ :
MascotXMLHandler
,
ProteinIdentification
search_string_ :
DBSpectrumSelectorDialog
search_title_ :
MascotInfile
search_type_ :
MascotInfile
searchInScan_() :
TwoDOptimization
SearchParameters() :
ProteinIdentification::SearchParameters
searchSuffix() :
TextFile
SECH_PEAK :
PeakShapeType
secs_ :
PreciseTime
SECTOR :
MassAnalyzer
selected() :
ParamTree
selected_ :
MultiGradientSelector
selected_color_ :
MultiGradientSelector
selected_peak_ :
Spectrum1DCanvas
,
Spectrum2DCanvas
selected_peaks_ :
Spectrum1DCanvas
SELECTEDIONDETECTION :
InstrumentSettings
,
MassAnalyzer
selectionChanged() :
ParamTree
sendCursorStatus() :
SpectrumCanvas
,
SpectrumWidget
sendStatus() :
BaseVisualizer
sendStatusMessage() :
SpectrumCanvas
,
SpectrumWidget
sep_indices_ :
BigString
separator_ :
BigString
SEPTUM :
IonSource
sequence_ :
PeptideHit
,
ProteinHit
sequence_header_filter_ :
SequestInfile
SequestInfile() :
SequestInfile
SequestOutfile() :
SequestOutfile
set :
EmgFitter1D::Data
,
LmaGaussFitter1D::Data
,
LmaIsotopeFitter1D::Data
,
IsotopeDistribution
,
GlobalExceptionHandler
,
PreciseTime
,
Date
,
DateTime
,
HashMap
set2DData() :
MSExperiment
setAAAfter() :
PeptideHit
setAABefore() :
PeptideHit
setAcceptableAbsolute() :
FuzzyStringComparator
setAcceptableRelative() :
FuzzyStringComparator
setAccession() :
ProteinHit
setAccuracy() :
MassAnalyzer
setAcquisitionInfo() :
SpectrumSettings
setAcquisitionMode() :
IonDetector
setActionMode() :
TOPPViewBase
,
SpectrumCanvas
,
SpectrumWidget
setActivationEnergy() :
Precursor
setActivationEnergyUnit() :
Precursor
setActivationMethod() :
Precursor
setADCSamplingFrequency() :
IonDetector
setAddAverageWeight() :
ResidueModification
setAddFormula() :
ResidueModification
setAddMonoWeight() :
ResidueModification
setAffectedAminoAcids() :
Modification
setAllowShortNumbers() :
AxisWidget
setAngels() :
Spectrum3DOpenGLCanvas
setArea() :
PickedPeak1D
setAtomicNumber() :
Element
setAverageWeight() :
Element
,
Residue
setAxisBounds() :
AxisWidget
setBackboneBasicityLeft() :
Residue
setBackboneBasicityRight() :
Residue
setBaseContainer() :
DPeakConstReferenceArray
setBaseContainerPointer() :
DPeakConstReferenceArray
setBlind() :
InspectInfile
setBoundary() :
MascotInfile
setBucketWindowScaling() :
PoseClusteringAffineSuperimposer
setBucketWindowShift() :
PoseClusteringAffineSuperimposer
setByUser_() :
TOPPBase
setCanvas_() :
SpectrumWidget
setCharge() :
EmpiricalFormula
,
PrecursorPeak
,
Feature
,
PickedPeak1D
,
PeptideHit
,
OptimizePeakDeconvolution
setChargeDeconvolution() :
ProcessingMethod
setCharges() :
MascotInfile
setCleavage() :
MascotInfile
setColor() :
ColorSelector
setColumn() :
HPLC
setComment() :
ExperimentalSettings
,
HPLC
,
MetaInfoDescription
,
Sample
,
SampleTreatment
,
Software
,
SpectrumSettings
setCompletionTime() :
Software
setConcentration() :
Sample
setContactInfo() :
ContactPerson
setContacts() :
ExperimentalSettings
setContainer() :
DSpectrum
setConvexHulls() :
Feature
setCurrentLayerParameters() :
SpectrumCanvas
setCustomizations() :
Instrument
setCutOff() :
BaseModel
setData() :
BilinearInterpolation
,
LinearInterpolation
,
FeatureFinderAlgorithm
setDatabase() :
SequestInfile
setDate() :
DateTime
,
ExperimentalSettings
setDateTime() :
ProteinIdentification
setDb() :
InspectInfile
setDB() :
MascotInfile
setDefaults() :
Param
setDeisotoping() :
ProcessingMethod
setDelAverageWeight() :
ResidueModification
setDelFormula() :
ResidueModification
setDelMonoWeight() :
ResidueModification
setDescription() :
MetaInfoRegistry
setDiffExponent() :
SimplePairFinder
setDiffIntercept() :
DelaunayPairFinder
,
SimplePairFinder
setDigestionTime() :
Digestion
setDrawMode() :
Spectrum1DCanvas
setDrawMode1D() :
TOPPViewBase
setEditorData() :
ParamEditorDelegate
setElement() :
IndexTuple
setElementBucketWindow() :
PoseClusteringShiftSuperimposer
setElementIndex() :
IndexTuple
setElementMap() :
BasePairFinder
,
BasePairwiseMapMatcher
,
BaseSuperimposer
setElementMapVector() :
BaseAlignment
setElementPairs() :
BasePairFinder
,
BaseMapMatcher
setEmail() :
ContactPerson
setEnzyme() :
EnzymaticDigestion
,
InspectInfile
,
SequestInfile
,
Digestion
setFactor() :
SpectrumCheapDPCorr
setFastaFile() :
EdwardsLippertIterator
,
PepIterator
,
TrypticIterator
,
FastaIterator
,
FastaIteratorIntern
setFeatures() :
ConsensusFeature
setFile() :
GlobalExceptionHandler
setFileNames() :
BaseAlignment
setFilenames() :
ConsensusMap
setFileSize() :
SourceFile
setFileType() :
SourceFile
setFilters() :
SpectrumCanvas
setFinalConsensusMap() :
BaseAlignment
setFinalMSExponent() :
MassAnalyzer
setFirst() :
ElementPair
setFirstName() :
ContactPerson
setFlux() :
HPLC
setFormula() :
Residue
setFormVersion() :
MascotInfile
setFunction() :
GlobalExceptionHandler
setFWHM() :
PickedPeak1D
setGradient() :
HPLC
setGrid() :
BaseMapMatcher
,
MapDewarper
setGridLines() :
AxisWidget
setHigherScoreBetter() :
PeptideIdentification
,
ProteinIdentification
setHits() :
MascotInfile
,
PeptideIdentification
,
ProteinIdentification
setHPLC() :
ExperimentalSettings
setIdentifier() :
PeptideIdentification
,
ProteinIdentification
setInitialParameters_() :
EmgFitter1D
,
LmaGaussFitter1D
,
LmaIsotopeFitter1D
setInletType() :
IonSource
setInstitution() :
ContactPerson
setInstrument() :
InspectInfile
,
MascotInfile
,
ExperimentalSettings
,
HPLC
setInstrumentSettings() :
SpectrumSettings
setIntensity() :
DRawDataPoint
,
RawDataPoint1D
,
RawDataPoint2D
setIntensityCutoff() :
ProcessingMethod
setIntensityMode() :
TOPPViewBase
,
SpectrumCanvas
,
SpectrumWidget
setIntensityRange() :
PeakFileOptions
,
ConsensusFeature
,
ConsensusPeak
setIntercept() :
LinearMapping
setInterpolationMode() :
MultiGradient
,
MultiGradientSelector
setInterpolationStep() :
InterpolationModel
setInverseOrientation() :
AxisWidget
setIonCutoffPercentage() :
SequestInfile
setIonDetector() :
Instrument
setIonizationMethod() :
IonSource
setIonSeriesWeights() :
SequestInfile
setIonSource() :
Instrument
setIsolationWidth() :
MassAnalyzer
setIsotopeDistribution() :
Element
setLastName() :
ContactPerson
setLayerFlag() :
SpectrumCanvas
setLayerName() :
SpectrumCanvas
setLeftPaddingIndex() :
ContinuousWaveletTransform
setLeftSplitter() :
HistogramDialog
,
HistogramWidget
setLeftWidthParameter() :
PickedPeak1D
setLegend() :
AxisWidget
,
HistogramDialog
,
HistogramWidget
setLine() :
GlobalExceptionHandler
setLogDestination() :
FuzzyStringComparator
setLogScale() :
AxisWidget
setLogType() :
ProgressLogger
setLossAverageWeight() :
Residue
setLossFormula() :
Residue
setLossMonoWeight() :
Residue
setLossName() :
Residue
setLowMassIons() :
Residue
setMagneticFieldStrength() :
MassAnalyzer
setMap() :
MapDewarper
setMapIndex() :
IndexTuple
setMapping() :
LinearInterpolation
setMapping_0() :
BilinearInterpolation
setMapping_1() :
BilinearInterpolation
setMappings() :
GridCell
setMapType() :
BaseAlignment
setMapVector() :
ConsensusMap
setMargin() :
AxisWidget
setMass() :
Modification
,
Sample
setMassAnalyzers() :
Instrument
setMassShift() :
Tagging
setMassType() :
MascotInfile
setMassTypeFragment() :
SequestInfile
setMassTypeParent() :
SequestInfile
setMatchPeakAllowedError() :
SequestInfile
setMatchPeakCount() :
SequestInfile
setMatchPeakTolerance() :
SequestInfile
setMax() :
DIntervalBase
setMaxAAPerModPerPeptide() :
SequestInfile
setMaxAbsError() :
OptimizePick
,
TwoDOptimization
setMaxCharge() :
IsotopeWavelet
setMaxFloat() :
Param
setMaxFloat_() :
TOPPBase
setMaxInt() :
Param
setMaxInt_() :
TOPPBase
setMaxInternalCleavageSites() :
SequestInfile
setMaxIsotope() :
IsotopeDistribution
setMaxIterations() :
TwoDOptimization
setMaxModsPerPeptide() :
SequestInfile
setMaxPairDistance() :
DelaunayPairFinder
setMaxPeakDistance() :
TwoDOptimization
setMaxPTMsize() :
InspectInfile
setMaxRelError() :
OptimizePick
,
TwoDOptimization
setMaxX() :
DIntervalBase
setMaxY() :
DIntervalBase
setMean() :
BasicStatistics
setMessage() :
Base
,
GlobalExceptionHandler
setMetadataOnly() :
PeakFileOptions
setMetaInfoDescriptions() :
SpectrumSettings
setMetaValue() :
MetaInfoInterface
setMethodOfCombination() :
AcquisitionInfo
setMin() :
DIntervalBase
setMinFloat() :
Param
setMinFloat_() :
TOPPBase
setMinInt() :
Param
setMinInt_() :
TOPPBase
setMinMax() :
DIntervalBase
setMinQuality() :
BaseMapMatcher
setMinX() :
DIntervalBase
setMinY() :
DIntervalBase
setMissedCleavages() :
EnzymaticDigestion
,
MascotInfile
setML1s() :
TOFCalibration
setML2s() :
TOFCalibration
setML3s() :
TOFCalibration
setModel() :
Instrument
,
ProductModel
setModelData() :
ParamEditorDelegate
setModelDescription() :
Feature
setModification() :
Residue
setModificationOutputMethod() :
SuffixArrayPeptideFinder
setModifications() :
ResidueDB
,
MascotInfile
setModificationsPerPeptide() :
InspectInfile
setModified() :
ParamEditor
setMonoIsotopicMass() :
ModelFitter
setMonoisotopicPeaks() :
InternalCalibration
setMonoWeight() :
Element
,
Residue
setMSLevel() :
DSpectrum
setMSLevels() :
PeakFileOptions
setMulticharge() :
InspectInfile
setMZ() :
RawDataPoint1D
,
RawDataPoint2D
setMzBucketSize() :
PoseClusteringAffineSuperimposer
setMZRange() :
PeakFileOptions
setMzRangeStart() :
InstrumentSettings
setMzRangeStop() :
InstrumentSettings
setMZTolerance() :
TwoDOptimization
setName() :
Element
,
Residue
,
ResidueModification
,
GlobalExceptionHandler
,
DefaultParamHandler
,
DSpectrum
,
ContactPerson
,
Instrument
,
MetaInfoDescription
,
Sample
,
Software
,
ModelDescription
setNameOfFile() :
SourceFile
setNamePrefix() :
ResidueModification
setNeutralLossesForIons() :
SequestInfile
setNormalizeXcorr() :
SequestInfile
setNucleotideReadingFrame() :
SequestInfile
setNumber() :
Acquisition
,
Sample
setNumberBuckets() :
BasePairwiseMapMatcher
setNumberIterations() :
OptimizePick
setNumberOfModifications() :
ModifierRep
,
SuffixArray
,
SuffixArrayPeptideFinder
,
SuffixArraySeqan
,
SuffixArrayTrypticCompressed
setOffset() :
LinearInterpolation
,
BiGaussModel
,
EmgModel
,
ExtendedIsotopeModel
,
GaussModel
,
InterpolationModel
,
IsotopeModel
,
LmaGaussModel
,
LmaIsotopeModel
setOffset_0() :
BilinearInterpolation
setOffset_1() :
BilinearInterpolation
setOneLetterCode() :
Residue
setOptions() :
FeatureXMLHandler
,
MzDataHandler
,
MzXMLHandler
setOrganism() :
Sample
setOutputLines() :
SequestInfile
setOverallQuality() :
Feature
setPairMinQuality() :
SimplePairFinder
setParam() :
ModelDescription
setParameter() :
SVMWrapper
setParameters() :
DefaultParamHandler
setPartialSequence() :
SequestInfile
setPathToFile() :
SourceFile
setPeakIcon() :
Spectrum1DCanvas
setPeakMassTolerance() :
InspectInfile
,
MascotInfile
,
SequestInfile
setPeaks() :
InternalCalibration
,
ConsensusPeak
setPeakShape() :
PickedPeak1D
setPenalties() :
OptimizePeakDeconvolution
,
OptimizePick
,
TwoDOptimization
setPenWidth() :
AxisWidget
setPeptideIdentifications() :
Feature
,
SpectrumSettings
setPeptideMassUnit() :
SequestInfile
setPeptideProtonDistribution() :
ProtonDistributionModel
setPercentage() :
Gradient
setPersistenceId() :
PersistentObject
setPh() :
Digestion
setPka() :
Residue
setPkb() :
Residue
setPkc() :
Residue
setPolarity() :
InstrumentSettings
,
IonSource
setPos() :
RawDataPoint1D
setPosition() :
PoseClusteringShiftSuperimposer::Shift
,
DRawDataPoint
,
RawDataPoint1D
,
RawDataPoint2D
setPositionRange() :
ConsensusFeature
,
ConsensusPeak
setPrecision() :
DelaunayPairFinder
setPrecursor() :
SpectrumSettings
setPrecursorMassTolerance() :
InspectInfile
,
MascotInfile
,
SequestInfile
setPrecursorPeak() :
DSpectrum
setPressure() :
HPLC
setPrintDuplicateReferences() :
SequestInfile
setProcessingMethod() :
ExperimentalSettings
setProgress() :
ProgressLogger
setProteinAccessions() :
PeptideHit
setProteinIdentifications() :
ExperimentalSettings
setProteinMassFilter() :
SequestInfile
setQuality() :
ElementPair
,
PoseClusteringShiftSuperimposer::Shift
,
Feature
setRange() :
Spectrum1DGoToDialog
,
Spectrum2DGoToDialog
setRank() :
PeptideHit
,
ProteinHit
setReagentName() :
Modification
setReferenceMapIndex() :
StarAlignment
setReflectronState() :
MassAnalyzer
setRemovePrecursorNearPeaks() :
SequestInfile
setResidueDB() :
AASequence
setResidues() :
ResidueDB
setResiduesInUpperCase() :
SequestInfile
setResolution() :
IonDetector
,
MassAnalyzer
setResolutionMethod() :
MassAnalyzer
setResolutionType() :
MassAnalyzer
setRightPaddingIndex() :
ContinuousWaveletTransform
setRightSplitter() :
HistogramDialog
,
HistogramWidget
setRightWidthParameter() :
PickedPeak1D
setRT() :
DSpectrum
,
RawDataPoint2D
setRTRange() :
PeakFileOptions
setRValue() :
PickedPeak1D
setSample() :
ExperimentalSettings
setSamples() :
BiGaussModel
,
EmgModel
,
ExtendedIsotopeModel
,
GaussModel
,
InterpolationModel
,
IsotopeModel
,
LmaGaussModel
,
LmaIsotopeModel
setScale() :
LinearInterpolation
,
ProductModel
,
ContinuousWaveletTransform
setScale_0() :
BilinearInterpolation
setScale_1() :
BilinearInterpolation
setScalingBucketSize() :
PoseClusteringAffineSuperimposer
setScalingFactor() :
InterpolationModel
setScanDirection() :
MassAnalyzer
setScanFunction() :
MassAnalyzer
setScanLaw() :
MassAnalyzer
setScanMode() :
InstrumentSettings
setScanRate() :
MassAnalyzer
setScanTime() :
MassAnalyzer
setScore() :
PeptideHit
,
ProteinHit
setScoreType() :
PeptideIdentification
,
ProteinIdentification
setSearchEngine() :
ProteinIdentification
setSearchEngineVersion() :
ProteinIdentification
setSearchParameters() :
ProteinIdentification
setSearchType() :
MascotInfile
setSecond() :
ElementPair
setSectionDescription() :
Param
setSeparator() :
BigString
setSequence() :
PeptideHit
,
ProteinHit
setSequenceHeaderFilter() :
SequestInfile
setSha1() :
SourceFile
setShiftBucketSize() :
PoseClusteringAffineSuperimposer
,
PoseClusteringShiftSuperimposer
setShiftBucketWindow() :
PoseClusteringShiftSuperimposer
setShortName() :
Residue
,
ResidueModification
setShowFragmentIons() :
SequestInfile
setSideChainBasicity() :
Residue
setSignal() :
ContinuousWaveletTransform
setSignalLength() :
ContinuousWaveletTransform
setSignificanceThreshold() :
PeptideIdentification
,
ProteinIdentification
setSize() :
SaveImageDialog
setSizeRatio_() :
SaveImageDialog
setSlope() :
LinearMapping
setSN() :
PickedPeak1D
setSoftware() :
ExperimentalSettings
setSourceFile() :
ExperimentalSettings
,
MetaInfoDescription
,
SpectrumSettings
setSpacing() :
ContinuousWaveletTransform
setSpecificityType() :
Modification
setSpectra() :
InspectInfile
setSpectrum() :
EdwardsLippertIterator
,
PepIterator
,
TrypticIterator
,
FastaIterator
,
FastaIteratorIntern
setSpectrumType() :
ProcessingMethod
setSpectrumWidget() :
SpectrumCanvas
setStandardEnzymeInfo_() :
SequestInfile
setState() :
Sample
setStatus() :
MSMetaDataExplorer
setSubsamples() :
Sample
setSum() :
BasicStatistics
setSymbol() :
Element
setSynonyms() :
Residue
,
ResidueModification
setTableSteps() :
IsotopeWavelet
setTagCount() :
InspectInfile
setTags() :
SuffixArray
,
SuffixArrayPeptideFinder
,
SuffixArraySeqan
,
SuffixArrayTrypticCompressed
setTandemScanMethod() :
MassAnalyzer
setTaxonomy() :
MascotInfile
setTemperature() :
Digestion
,
HPLC
setThreeLetterCode() :
Residue
setTickLevel() :
AxisWidget
setTime() :
DateTime
setTOFTotalPathLength() :
MassAnalyzer
setTolerance() :
FastaIterator
,
EdwardsLippertIterator
,
PepIterator
,
TrypticIterator
,
SuffixArray
,
SuffixArrayPeptideFinder
,
SuffixArraySeqan
,
SuffixArrayTrypticCompressed
,
FastaIteratorIntern
setTool_() :
ToolsDialog
setTotalmappingsize() :
ExternalAllocatorUnique
setTrainingSample() :
SVMWrapper
setTransformation() :
BasePairFinder
,
BaseSuperimposer
setTransformationVector() :
BaseAlignment
setTransformedPosition() :
IndexTuple
setType() :
ExperimentalSettings
,
IonDetector
,
MassAnalyzer
,
SpectrumSettings
setType_() :
ToolsDialog
setUnit() :
MetaInfoRegistry
setUnmodifiedName() :
Residue
setUseTags() :
SuffixArray
,
SuffixArrayPeptideFinder
,
SuffixArraySeqan
,
SuffixArrayTrypticCompressed
setValidFormats_() :
TOPPBase
setValidResidues() :
ResidueModification
setValidStrings() :
Param
setValidStrings_() :
TOPPBase
setValue() :
Matrix
,
Param
,
MetaInfo
setVariableModifications() :
MascotInfile
setVariance() :
BasicStatistics
setVariant() :
Tagging
setVendor() :
Instrument
setVerboseLevel() :
FuzzyStringComparator
setVersion() :
Software
setVisibleArea() :
Spectrum1DCanvas
,
SpectrumCanvas
setVolume() :
Sample
setWavelet() :
ContinuousWaveletTransform
setWeights() :
SVMWrapper
setWindowLength() :
InternalCalibration
setWindowSize() :
Precursor
setWriteSupplementalData() :
PeakFileOptions
setX() :
DPosition
setY() :
DPosition
setZoomFactor() :
Spectrum3DOpenGLCanvas
sha1_ :
SourceFile
,
SourceFileVisualizer
SHADE_FLAT :
Spectrum3DCanvas
SHADE_SMOOTH :
Spectrum3DCanvas
ShadeModes :
Spectrum3DCanvas
shared_extalloc_ :
ExternalAllocator
Shift() :
PoseClusteringShiftSuperimposer::Shift
SHIFT :
PoseClusteringAffineSuperimposer
shift_() :
PoseClusteringShiftSuperimposer
shift_bounding_box_ :
PoseClusteringAffineSuperimposer
,
PoseClusteringShiftSuperimposer
shift_bounding_box_enlarged_ :
PoseClusteringShiftSuperimposer
shift_bucket_ :
PoseClusteringShiftSuperimposer
shift_bucket_size_ :
PoseClusteringAffineSuperimposer
,
PoseClusteringShiftSuperimposer
shift_bucket_window_ :
PoseClusteringShiftSuperimposer
ShiftMatrixType :
PoseClusteringShiftSuperimposer
ShiftQualityMatrixType :
PoseClusteringShiftSuperimposer
ShiftType :
PoseClusteringShiftSuperimposer
short_name_ :
ResidueModification
,
Residue
shortDimensionName() :
RawDataPoint2D
shortDimensionNameMZ() :
RawDataPoint2D
shortDimensionNameRT() :
RawDataPoint2D
shortDimensionUnit() :
RawDataPoint2D
shortDimensionUnitMZ() :
RawDataPoint2D
shortDimensionUnitRT() :
RawDataPoint2D
show_fragment_ions_ :
SequestInfile
show_grid_ :
SpectrumCanvas
show_legend_ :
AxisWidget
show_splitters_ :
HistogramWidget
showAboutDialog() :
TOPPViewBase
showAllHits_() :
MSMetaDataExplorer
showAsWindow_() :
TOPPViewBase
showCurrentLayerPreferences() :
Spectrum1DCanvas
,
Spectrum3DCanvas
,
SpectrumCanvas
,
Spectrum2DCanvas
showCurrentPeaksAs3D() :
TOPPViewBase
,
Spectrum2DWidget
,
Spectrum2DCanvas
showCursorStatus() :
TOPPViewBase
showDetails_() :
MSMetaDataExplorer
showDocumentation() :
ParamEditor
showGoToDialog() :
Spectrum1DWidget
,
Spectrum2DWidget
,
Spectrum3DWidget
,
SpectrumWidget
showGridLines() :
SpectrumCanvas
showIntensityDistribution() :
SpectrumWidget
showLegend() :
AxisWidget
,
Spectrum3DWidget
,
SpectrumWidget
,
Spectrum3DCanvas
showMetadata() :
OpenDialog
showProjectionHorizontal() :
Spectrum2DCanvas
showProjectionInfo() :
Spectrum2DCanvas
showProjections() :
TOPPViewBase
,
Spectrum2DCanvas
showProjectionVertical() :
Spectrum2DCanvas
showRange() :
Spectrum2DGoToDialog
showSpectrumAs1D() :
TOPPViewBase
,
Spectrum2DCanvas
,
Spectrum2DWidget
showSplitters() :
HistogramWidget
showStatistics() :
SpectrumWidget
showStatusMessage() :
TOPPViewBase
showTOPPDialog() :
TOPPViewBase
SI :
IonSource
SID :
Precursor
SideChain :
ProtonDistributionModel
sigma :
LmaIsotopeFitter1D::Data
sigma_ :
GaussFilter
,
SVMWrapper
sigmas_ :
SVMWrapper
signal_ :
ContinuousWaveletTransform
signal_length_ :
ContinuousWaveletTransform
signal_to_noise :
PeakShape
signal_to_noise_ :
PeakPicker
,
PickedPeak1D
SignalToNoiseEstimator() :
SignalToNoiseEstimator
SignalToNoiseEstimatorMeanIterative() :
SignalToNoiseEstimatorMeanIterative
SignalToNoiseEstimatorMedian() :
SignalToNoiseEstimatorMedian
significance_threshold_ :
PeptideIdentification
similarity_() :
SimplePairFinder
SimpleExtender() :
SimpleExtender
SimplePairFinder() :
SimplePairFinder
SimpleSeeder() :
SimpleSeeder
SINGLE_LINKAGE :
HierarchicalClustering
SINGLEIONMONITORING :
MassAnalyzer
SINGLEREACTIONMONITORING :
MassAnalyzer
SingletonRegistry() :
SingletonRegistry
singletonRegistryInstance_ :
SingletonRegistry
singletonsNeedNoFriends :
SingletonRegistry
,
Factory
size() :
DataFilters
,
BigString
,
DSpectrum
,
Histogram
,
AASequence
,
BinnedRep
,
Param::ParamNode
,
Param
,
SparseVector
,
DPeakConstReferenceArray
,
MultiGradient
,
IsotopeDistribution
,
DPosition
,
HashMap
,
FeatureFinderAlgorithmPicked::TheoreticalIsotopePattern
size_ :
OutOfMemory
,
IndexUnderflow
,
SizeUnderflow
,
InvalidSize
,
IndexOverflow
,
HashMap
,
SparseVector
SIZE_OF_ACQUISITIONMODE :
IonDetector
SIZE_OF_ACTIVATIONMETHOD :
Precursor
SIZE_OF_ANALYZERTYPE :
MassAnalyzer
SIZE_OF_DIGESTIONENZYME :
ProteinIdentification
SIZE_OF_ENERGYUNITS :
Precursor
SIZE_OF_ENZYMES :
EnzymaticDigestion
SIZE_OF_EXPERIMENTTYPE :
ExperimentalSettings
SIZE_OF_INLETTYPE :
IonSource
SIZE_OF_IONIZATIONMETHOD :
IonSource
SIZE_OF_ISOTOPEVARIANT :
Tagging
SIZE_OF_PEAKMASSTYPE :
ProteinIdentification
SIZE_OF_POLARITY :
IonSource
SIZE_OF_REFLECTRONSTATE :
MassAnalyzer
SIZE_OF_RESOLUTIONMETHOD :
MassAnalyzer
SIZE_OF_RESOLUTIONTYPE :
MassAnalyzer
SIZE_OF_SAMPLESTATE :
Sample
SIZE_OF_SCANDIRECTION :
MassAnalyzer
SIZE_OF_SCANFUNCTION :
MassAnalyzer
SIZE_OF_SCANLAW :
MassAnalyzer
SIZE_OF_SCANMODE :
InstrumentSettings
SIZE_OF_SPECIFICITYTYPE :
Modification
SIZE_OF_SPECTRUMTYPE :
SpectrumSettings
SIZE_OF_TANDEMSCANNINGMETHOD :
MassAnalyzer
SIZE_OF_TYPE :
FileHandler
,
IonDetector
size_proportions_ :
SaveImageDialog
size_ratio_ :
SaveImageDialog
size_type :
Grid
,
Matrix
,
DPeakConstReferenceArray
,
HashMap
,
Group
,
DSpectrum
,
ExternalAllocator
size_x_ :
SaveImageDialog
size_y_ :
SaveImageDialog
sizeHint() :
ColorSelector
sizePair() :
Matrix
SizeType :
ConvexHull2D
,
Matrix
,
String
SizeUnderflow() :
SizeUnderflow
skip_ :
SuffixArrayTrypticCompressed
skip_spectrum_ :
MzDataHandler
,
MzXMLHandler
slope_ :
LinearMapping
,
LinearRegression
slope_bound_ :
FeatureFinderAlgorithmPicked
sm_ :
XMLHandler
SmoothFilter() :
SmoothFilter
snap_factor_ :
SpectrumCanvas
snd_database_ :
SequestInfile
Software() :
Software
software_ :
ExperimentalSettings
software_comment_ :
SoftwareVisualizer
software_completion_time_ :
SoftwareVisualizer
software_name_ :
SoftwareVisualizer
software_version_ :
SoftwareVisualizer
SoftwareVisualizer() :
SoftwareVisualizer
SOLID :
Sample
SOLUTION :
Sample
sort() :
PeptideIdentification
,
ProteinIdentification
sortByComparator() :
DPeakConstReferenceArray
,
DPeakArray
sortByIntensity() :
DPeakConstReferenceArray
,
FeatureMap
,
DPeakArray
sortByNthPosition() :
FeatureMap
,
DPeakArray
,
DPeakConstReferenceArray
sortByOverallQuality() :
FeatureMap
sortByPosition() :
FeatureMap
,
DPeakArray
,
DPeakConstReferenceArray
sortSpectra() :
MSExperiment
source_file_ :
ExperimentalSettings
,
MetaInfoDescription
,
SpectrumSettings
SourceFile() :
SourceFile
SourceFileVisualizer() :
SourceFileVisualizer
spacing_ :
LinearResampler
,
ContinuousWaveletTransform
,
GaussFilter
SparseVector :
SparseVector::SparseVectorIterator
,
SparseVector
,
SparseVector::SparseVectorConstIterator
SparseVector::SparseVectorConstIterator :
SparseVector::SparseVectorIterator
SparseVectorConstIterator() :
SparseVector::SparseVectorConstIterator
,
SparseVector
SparseVectorIterator() :
SparseVector::SparseVectorIterator
,
SparseVector
spatiallyGreaterEqual() :
DPosition
spatiallyLessEqual() :
DPosition
spec_ :
MzDataHandler
,
EdwardsLippertIterator
spec_write_counter_ :
MzXMLHandler
,
MzDataHandler
specificity_type_ :
Modification
SpecificityType :
Modification
spectra_ :
InspectInfile
spectrum :
FeatureFinderAlgorithmPicked::IsotopePattern
,
FeatureFinderAlgorithmPicked::Seed
Spectrum1DCanvas() :
Spectrum1DCanvas
Spectrum1DGoToDialog() :
Spectrum1DGoToDialog
Spectrum1DPrefDialog() :
Spectrum1DPrefDialog
Spectrum1DWidget() :
Spectrum1DWidget
Spectrum2DCanvas() :
Spectrum2DCanvas
Spectrum2DGoToDialog() :
Spectrum2DGoToDialog
Spectrum2DPrefDialog() :
Spectrum2DPrefDialog
Spectrum2DWidget() :
Spectrum2DWidget
Spectrum3DCanvas :
Spectrum3DOpenGLCanvas
,
Spectrum3DCanvas
Spectrum3DOpenGLCanvas() :
Spectrum3DOpenGLCanvas
,
Spectrum3DCanvas
Spectrum3DPrefDialog() :
Spectrum3DPrefDialog
Spectrum3DWidget() :
Spectrum3DWidget
spectrum_widget_ :
SpectrumCanvas
SpectrumAlignment() :
SpectrumAlignment
SpectrumAlignmentScore() :
SpectrumAlignmentScore
SpectrumCanvas() :
SpectrumCanvas
SpectrumCheapDPCorr() :
SpectrumCheapDPCorr
SpectrumIteratorType :
SpectrumCanvas
,
AreaIterator
SpectrumPrecursorComparator() :
SpectrumPrecursorComparator
SpectrumSettings() :
SpectrumSettings
spectrumsettings_comment_ :
SpectrumSettingsVisualizer
spectrumsettings_type_ :
SpectrumSettingsVisualizer
SpectrumSettingsVisualizer() :
SpectrumSettingsVisualizer
SpectrumType :
SpectrumSettings
,
MzDataHandler
,
MzXMLHandler
,
FeaFiModule
,
SpectrumCanvas
,
FeatureFinderAlgorithmPicked
,
MSExperiment
SpectrumWidget() :
SpectrumWidget
spline_ :
TOFCalibration
,
IsotopeWaveletTransform
split() :
String
spread_ :
BinnedRep
sqrt2_ :
PairMatcher
sqrt2pi() :
BasicStatistics
SqrtMower() :
SqrtMower
SRCTEMP :
ANDIHandler
stack_ :
Param::ParamIterator
stairsInterpolation() :
MultiGradientSelector
stamp() :
TimeStamp
stand_dev_residuals_ :
LinearRegression
stand_error_slope_ :
LinearRegression
standard_deviation_ :
LmaGaussFitter1D
,
LmaGaussModel
StarAlignment() :
StarAlignment
start() :
StopWatch
startElement() :
MzXMLHandler
,
MzDataHandler
,
FeaturePairsHandler
,
FeatureXMLHandler
,
MascotXMLHandler
,
PTMXMLHandler
,
IdXMLFile
,
OMSSAXMLHandler
,
XMLHandler
,
ConsensusXMLHandler
,
GridHandler
,
MzDataExpSettHandler
,
ParamXMLHandler
startProgress() :
ProgressLogger
stat_ :
LevMarqFitter1D
state_ :
Sample
statistics1_ :
BiGaussModel
,
BiGaussFitter1D
statistics2_ :
BiGaussFitter1D
,
BiGaussModel
statistics_ :
Fitter1D
,
EmgModel
,
GaussModel
,
LmaGaussModel
status_list_ :
MSMetaDataExplorer
stdev1_ :
Fitter1D
stdev2_ :
Fitter1D
stdev_ :
SignalToNoiseEstimatorMeanIterative
stickdata_ :
Spectrum3DOpenGLCanvas
stn_estimates_ :
SignalToNoiseEstimator
stop() :
StopWatch
StopWatch() :
StopWatch
store() :
MzXMLFile
,
DTAFile
,
PepNovoInfile
,
ConsensusXMLFile
,
ParamEditor
,
DTA2DFile
,
MzDataFile
,
Param
,
InspectInfile
,
MascotInfile
,
PTMXMLFile
,
GridFile
,
TextFile
,
MascotInfile
,
FeatureXMLFile
,
IdXMLFile
,
FeaturePairsXMLFile
,
FASTAFile
,
SequestInfile
store_() :
InstrumentVisualizer
,
TaggingVisualizer
,
AcquisitionInfoVisualizer
,
AcquisitionVisualizer
,
DigestionVisualizer
,
SpectrumSettingsVisualizer
,
PeptideIdentificationVisualizer
,
PrecursorVisualizer
,
IonDetectorVisualizer
,
MetaInfoDescriptionVisualizer
,
ProcessingMethodVisualizer
,
SoftwareVisualizer
,
ModificationVisualizer
,
ContactPersonVisualizer
,
ExperimentalSettingsVisualizer
,
MassAnalyzerVisualizer
,
PeptideHitVisualizer
,
IonSourceVisualizer
,
BaseVisualizer
,
SampleVisualizer
,
SourceFileVisualizer
,
ProteinHitVisualizer
,
GradientVisualizer
,
HPLCVisualizer
,
InstrumentSettingsVisualizer
,
MetaInfoVisualizer
,
ProteinIdentificationVisualizer
storeExperiment() :
DBAdapter
storeFile_() :
DBAdapter
storeINI_() :
ToolsDialog
storeLibSVMProblem() :
LibSVMEncoder
storeMetaInfo_() :
DBAdapter
storeRecursive_() :
ParamEditor
storeRotationAndZoom() :
Spectrum3DOpenGLCanvas
storeSample_() :
DBAdapter
str() :
BinnedRep
str_ :
DataValue
String() :
String
STRING :
TOPPBase::ParameterInformation
String() :
String
string_() :
ANDIHandler
STRING_VALUE :
DataValue
StringList() :
StringList
StringManager() :
StringManager
struc_size_ :
MorphFilter
subsamples_ :
Sample
subsections_ :
DefaultParamHandler
,
TOPPBase
substitute() :
String
substr() :
String
suffix() :
String
,
Param::ParamNode
,
String
SuffixArray() :
SuffixArray
SuffixArrayPeptideFinder() :
SuffixArrayPeptideFinder
SuffixArraySeqan() :
SuffixArraySeqan
SuffixArrayTrypticCompressed() :
SuffixArrayTrypticCompressed
SuffixArrayTrypticSeqan() :
SuffixArrayTrypticSeqan
sum() :
BasicStatistics
sum_ :
BasicStatistics
superimposer_ :
PoseClusteringPairwiseMapMatcher
supportMax() :
LinearInterpolation
supportMax_0() :
BilinearInterpolation
supportMax_1() :
BilinearInterpolation
supportMin() :
LinearInterpolation
supportMin_0() :
BilinearInterpolation
supportMin_1() :
BilinearInterpolation
SUSPENSION :
Sample
SVMWrapper() :
SVMWrapper
swap() :
DPeakConstReferenceArray
,
DSpectrum
,
DPeakConstReferenceArray::DPeakConstReferenceArrayIterator
,
DPeakConstReferenceArray
,
HashMap
symbol_ :
Element
symbols_ :
ElementDB
symmetric_ :
LevMarqFitter1D
symmetry_ :
EmgModel
,
EmgFitter1D
synonyms_ :
ResidueModification
,
Residue
Generated Tue Apr 1 15:36:41 2008 -- using doxygen 1.5.4
OpenMS / TOPP 1.1