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ICPLLabeler() :
ICPLLabeler
IDDecoyProbability() :
IDDecoyProbability
Identification() :
Identification
IdentificationHit() :
IdentificationHit
identifyCharge() :
IsotopeWaveletTransform< PeakType >
IDEvaluationBase() :
IDEvaluationBase
IDFilter() :
IDFilter
IDMapper() :
IDMapper
IDRipper() :
IDRipper
IdXMLFile() :
IdXMLFile
IEWindow() :
InclusionExclusionList::IEWindow
IllegalArgument() :
IllegalArgument
IllegalKey() :
Map< Key, T >::IllegalKey
IllegalPosition() :
IllegalPosition
IllegalSelfOperation() :
IllegalSelfOperation
IllegalTreeOperation() :
IllegalTreeOperation
ILPDCWrapper() :
ILPDCWrapper
importExperimentalSettings() :
XMassFile
IMSAlphabet() :
IMSAlphabet
IMSElement() :
IMSElement
IMSIsotopeDistribution() :
IMSIsotopeDistribution
inc() :
Histogram< ValueType, BinSizeType >
include() :
TOPPASScene
IncludeExcludeTarget() :
IncludeExcludeTarget
includeMSMSPeptides_() :
ProteinResolver
includePipeline() :
TOPPASBase
InclusionExclusionList() :
InclusionExclusionList
incomingEdgesCount() :
TOPPASVertex
IncompatibleBinning() :
BinnedSpectrumCompareFunctor::IncompatibleBinning
IncompatibleIterators() :
IncompatibleIterators
increase_LC_elution_peak_counter() :
ProcessData
increaseBoundingBox_() :
IDMapper
index() :
HashGrid< Cluster >::Iterator
,
HashGrid< Cluster >::ConstIterator
,
Matrix< Value >
index2key() :
LinearInterpolation< Key, Value >
index2key_0() :
BilinearInterpolation< Key, Value >
index2key_1() :
BilinearInterpolation< Key, Value >
IndexOverflow() :
IndexOverflow
indexPair() :
Matrix< Value >
IndexUnderflow() :
IndexUnderflow
IndexWithPriority() :
SimpleExtender< PeakType, FeatureType >::IndexWithPriority
inEdgeHasChanged() :
TOPPASOutputFileListVertex
,
TOPPASToolVertex
,
TOPPASVertex
inEdgesBegin() :
TOPPASVertex
inEdgesEnd() :
TOPPASVertex
infer() :
ProteinInference
infer_() :
ProteinInference
inferMoreEdges_() :
FeatureDeconvolution
INIFileEditorWindow() :
INIFileEditorWindow
InIntensityRange() :
InIntensityRange< PeakType >
init() :
PILISModel
,
SignalToNoiseEstimator< Container >
,
IsotopeWavelet
,
BackgroundControl
,
IsotopicDist
,
ContinuousWaveletTransform
,
ContinuousWaveletTransformNumIntegration
init_() :
ItraqChannelExtractor
,
UniqueIdGenerator
,
MassExplainer
,
NLargest
,
MzDataHandler< MapType >
,
MzXMLHandler< MapType >
,
PeakPickerCWT
initChannelMap() :
ItraqConstants
initialize() :
ConfidenceScoring
,
SILACAnalyzer
,
GaussFilterAlgorithm
,
SimRandomNumberGenerator
initialize_() :
SimpleSeeder< PeakType, FeatureType >
initializeDefaultParameters_() :
TOPPViewBase
initializeGL() :
Spectrum3DOpenGLCanvas
initializeGlm() :
ConfidenceScoring
initializeMap_() :
FileTypes
initializeMaps_() :
SvmTheoreticalSpectrumGenerator
initializeMZMLMap_() :
FileTypes
initializeScan() :
IsotopeWaveletTransform< PeakType >
initializeWT_() :
PeakPickerCWT
initializeXCorrMatrix() :
MRMScoring
initIsotopeCorrections_() :
ItraqQuantifier
initIsotopeDistributions_() :
CompNovoIdentificationBase
,
CompNovoIonScoringBase
initParam_() :
TOPPASToolVertex
initParameters_() :
SVMWrapper
initParams() :
FeatureFinderAlgorithmSHCtrl
InitPlots() :
PosteriorErrorProbabilityModel
initStaticMembers_() :
MzXMLHandler< MapType >
initvec() :
Chromatogram
,
Spectrum
,
Chromatogram
,
Spectrum
INIUpdater() :
INIUpdater
InMSLevelRange() :
InMSLevelRange< SpectrumType >
InMzRange() :
InMzRange< PeakType >
InPrecursorMZRange() :
InPrecursorMZRange< SpectrumType >
inputFileReadable_() :
TOPPBase
InputLine() :
FuzzyStringComparator::InputLine
InRTRange() :
InRTRange< SpectrumType >
insert() :
ConsensusFeature
,
MultiGradient
,
HashGrid< Cluster >
,
LogStream
,
ConstRefVector< ContainerT >
,
Param::ParamNode
,
Param
,
ConsensusFeature
insert_MZ_cluster_element() :
ProcessData
insert_new_observed_mz() :
ProcessData
insert_observed_mz() :
ProcessData
insertCluster_() :
HierarchicalClustering< PointRef >
insertHit() :
PeptideIdentification
,
ProteinIdentification
insertIndistinguishableProteins() :
ProteinIdentification
insertmarker() :
MarkerMower
insertNewVertex_() :
TOPPASBase
insertNewVertexInCenter_() :
TOPPASBase
insertNotification() :
LogStream
insertPair() :
ROCCurve
insertPoint() :
HierarchicalClustering< PointRef >
insertProteinGroup() :
ProteinIdentification
insideBand_() :
MapAlignmentAlgorithmSpectrumAlignment
InspectInfile() :
InspectInfile
InspectOutfile() :
InspectOutfile
instance() :
SuperHirnParameters
instance_() :
Factory< FactoryProduct >
,
SingletonRegistry
Instrument() :
Instrument
InstrumentSettings() :
InstrumentSettings
InstrumentSettingsVisualizer() :
InstrumentSettingsVisualizer
InstrumentVisualizer() :
InstrumentVisualizer
InsufficientInput() :
ClusterFunctor::InsufficientInput
IntegerMassDecomposer() :
IntegerMassDecomposer< ValueType, DecompositionValueType >
integrate_() :
GaussFilterAlgorithm
,
ContinuousWaveletTransformNumIntegration
IntensityBalanceFilter() :
IntensityBalanceFilter
intensityFilter_() :
SILACFilter
intensityFilterPassed_() :
FeatureDeconvolution
IntensityIterator() :
IntensityIterator< FeaFiModuleType >
IntensityIteratorWrapper() :
IntensityIteratorWrapper< IteratorT >
IntensityLess() :
IntensityLess< FeaFiModuleType >
intensityModeChange_() :
Spectrum1DCanvas
,
Spectrum2DCanvas
,
SpectrumCanvas
,
SpectrumWidget
intensityScore_() :
FeatureFinderAlgorithmPicked< PeakType, FeatureType >
InternalCalibration() :
InternalCalibration
interpolatedColorAt() :
MultiGradient
InterpolationModel() :
InterpolationModel
intersection_() :
FeatureFinderAlgorithmPicked< PeakType, FeatureType >
intersects() :
DBoundingBox< D >
,
DRange< D >
IntList() :
IntList
invalidate_() :
HistogramWidget
InvalidIterator() :
InvalidIterator
InvalidParameter() :
InvalidParameter
InvalidQuery() :
DBConnection::InvalidQuery
InvalidRange() :
InvalidRange
InvalidSize() :
InvalidSize
InvalidValue() :
InvalidValue
invert() :
TransformationDescription
,
TransformationModelLinear
invertRecylingMode() :
TOPPASToolVertex
,
TOPPASVertex
IOException() :
IOException
IOInfo() :
TOPPASToolVertex::IOInfo
IonDetector() :
IonDetector
IonDetectorVisualizer() :
IonDetectorVisualizer
IonizationSimulation() :
IonizationSimulation
ionize() :
IonizationSimulation
ionizeEsi_() :
IonizationSimulation
ionizeMaldi_() :
IonizationSimulation
IonScore() :
DeNovoIonScoring::IonScore
,
CompNovoIonScoringBase::IonScore
,
DeNovoIonScoring::IonScore
IonSource() :
IonSource
IonSourceVisualizer() :
IonSourceVisualizer
IonType() :
SvmTheoreticalSpectrumGenerator::IonType
isActive() :
ChargePair
,
DataFilters
isAtEnd() :
FastaIterator
,
EdwardsLippertIterator
,
PepIterator
,
TrypticIterator
,
FastaIteratorIntern
isCharged() :
EmpiricalFormula
isChildOf() :
ControlledVocabulary
isCleavageSite_() :
EnzymaticDigestion
isCompatible() :
ModificationDefinitionsSet
isConflicting() :
Compomer
isConnected() :
DBConnection
isConsensusFeatureVisible_() :
Spectrum2DCanvas
isContained() :
BaseModel< D >
isCutoffEnabled() :
TOPPViewOpenDialog
isDigestingEnd() :
SuffixArrayTrypticCompressed
,
EdwardsLippertIterator
,
EdwardsLippertIteratorTryptic
,
TrypticIterator
,
SuffixArray
,
SuffixArraySeqan
,
SuffixArrayTrypticSeqan
isDirectory() :
File
isDryRun() :
TOPPASScene
isEdgeAllowed_() :
TOPPASScene
isEditable() :
MetaDataBrowser
,
BaseVisualizerGUI
isEmpty() :
DBoundingBox< D >
,
DRange< D >
,
DataValue
,
EmpiricalFormula
IsEmptySpectrum() :
IsEmptySpectrum< SpectrumType >
isFeatureValid_() :
IonizationSimulation
isFinished() :
TOPPASVertex
isFixedModification() :
ModificationDefinition
isHidden() :
HMMState
isHigherScoreBetter() :
ProteinIdentification
,
PeptideIdentification
isIdentityCorrectionMatrix_() :
ItraqQuantifier
isIdentityMatrix_() :
IsobaricIsotopeCorrector
isInCache_() :
LogStreamBuf
IsInCollisionEnergyRange() :
IsInCollisionEnergyRange< SpectrumType >
isInf() :
MzTabNullNaNAndInfAbleInterface
,
MzTabNullNaNAndInfAbleBase
IsInIsolationWindowSizeRange() :
IsInIsolationWindowSizeRange< SpectrumType >
isInitIsotopeDist() :
SuperHirnParameters
isInResidueSet() :
Residue
isInSpectrum_() :
EdwardsLippertIterator
isIntersected() :
DRange< D >
isInvalid() :
QTCluster
isInvertible_() :
IsobaricIsotopeCorrector
isLegalIsotopePattern2_() :
FeatureFindingMetabo
isLegalIsotopePattern_() :
FeatureFindingMetabo
isLegendShown() :
AxisWidget
,
Spectrum3DWidget
,
SpectrumWidget
,
Spectrum3DCanvas
isLogModelEnabled() :
EnzymaticDigestion
isLogScale() :
AxisWidget
isMapConsistent() :
ConsensusMap
isMatch_() :
IDMapper
isMetaEmpty() :
MetaInfoInterface
isModified() :
Residue
,
AASequence
,
ParamEditor
isMzToXAxis() :
SpectrumCanvas
isNaN() :
MzTabNullNaNAndInfAbleInterface
,
MzTabNullNaNAndInfAbleBase
isNull() :
MzTabSpectraRef
,
MzTabNullAbleInterface
,
MzTabNullNaNAndInfAbleBase
,
MzTabString
,
MzTabModification
,
MzTabModificationList
,
MzTabParameterList
,
MzTabStringList
,
MzTabDoubleList
,
MzTabParameter
,
MzTabNullAbleBase
IsobaricChannelExtractor() :
IsobaricChannelExtractor
IsobaricChannelInformation() :
IsobaricQuantitationMethod::IsobaricChannelInformation
IsobaricIsotopeCorrector() :
IsobaricIsotopeCorrector
IsobaricNormalizer() :
IsobaricNormalizer
IsobaricQuantifier() :
IsobaricQuantifier
IsobaricQuantifierStatistics() :
IsobaricQuantifierStatistics
IsobaricQuantitationMethod() :
IsobaricQuantitationMethod
isOpen() :
GzipIfstream
,
Bzip2Ifstream
isOpenMSDataPath_() :
File
IsotopeCluster() :
IsotopeCluster
IsotopeDiffFilter() :
IsotopeDiffFilter
IsotopeDistribution() :
IsotopeDistribution
IsotopeDistributionCache() :
IsotopeDistributionCache
IsotopeFitter1D() :
IsotopeFitter1D
IsotopeMarker() :
IsotopeMarker
IsotopeModel() :
IsotopeModel
IsotopePattern() :
FeatureFinderAlgorithmPickedHelperStructs::IsotopePattern
isotopeScore_() :
FeatureFinderAlgorithmPicked< PeakType, FeatureType >
IsotopeWavelet() :
IsotopeWavelet
IsotopeWaveletParallelFor() :
IsotopeWaveletParallelFor< PeakType, FeatureType >
IsotopeWaveletTransform() :
IsotopeWaveletTransform< PeakType >
isPipelineRunning() :
TOPPASScene
isProteinInMinimalList() :
PSProteinInference
isReachable() :
TOPPASVertex
isRecyclingEnabled() :
TOPPASVertex
isRefining() :
XTandemInfile
isRegistered() :
Factory< FactoryProduct >
,
SingletonRegistry
isRTColumnOn() :
RTSimulation
isRunning() :
StopWatch
isSameHandle() :
MapAlignmentEvaluationAlgorithm
isSelected() :
Annotation1DItem
isSemanticallyValid() :
MzQuantMLFile
,
MzIdentMLFile
,
MzMLFile
,
MzDataFile
,
TraMLFile
isSILACPattern_() :
SILACFilter
isSILACPatternPicked_() :
SILACFilter
isSingleAdduct() :
Compomer
isSorted() :
MSExperiment< PeakT, ChromatogramPeakT >
,
MSChromatogram< PeakT >
,
MSSpectrum< PeakT >
isSupported() :
FileHandler
isTooFarFromCentroid_() :
SimpleExtender< PeakType, FeatureType >
isToolReady() :
TOPPASToolVertex
isTopoSortMarked() :
TOPPASVertex
isUpstreamFinished() :
TOPPASVertex
isValid() :
FeatureFinderAlgorithmPickedHelperStructs::MassTrace< PeakType >
,
AASequence
,
FeatureFinderAlgorithmPickedHelperStructs::MassTraces< PeakType >
,
PeakIndex
,
Gradient
,
XMLFile
,
XMLValidator
,
UniqueIdInterface
,
Param::ParamEntry
,
MzMLFile
isValidPrecursor_() :
IsobaricChannelExtractor
isValidProduct() :
EnzymaticDigestion
IsZoomSpectrum() :
IsZoomSpectrum< SpectrumType >
itemChanged() :
TheoreticalSpectrumGenerationDialog
itemClicked() :
TOPPASScene
itemDragged() :
TOPPASVertex
itemReleased() :
TOPPASScene
Iterator() :
HashGrid< Cluster >::Iterator
,
AASequence::Iterator
,
HashGrid< Cluster >::Iterator
,
AASequence::Iterator
iteratorRange2Arrays_() :
LinearRegression
iteratorRange3Arrays_() :
LinearRegression
iteratorsSet() :
PeakShape
ItraqChannelExtractor() :
ItraqChannelExtractor
ItraqEightPlexQuantitationMethod() :
ItraqEightPlexQuantitationMethod
ItraqFourPlexQuantitationMethod() :
ItraqFourPlexQuantitationMethod
ITRAQLabeler() :
ITRAQLabeler
ItraqQuantifier() :
ItraqQuantifier
ItraqQuantifierStats() :
ItraqQuantifier::ItraqQuantifierStats
OpenMS / TOPP release 1.11.1
Documentation generated on Thu Nov 14 2013 11:20:59 using doxygen 1.8.5