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Here is a list of all class members with links to the classes they belong to:
- p -
p_ :
TheoreticalSpectrumGenerator
P_PRECURSORS :
LayerData
P_PROJECTIONS :
LayerData
paintConvexHulls_() :
Spectrum2DCanvas
paintDots_() :
Spectrum2DCanvas
paintEvent() :
HistogramWidget
,
MultiGradientSelector
,
Spectrum1DCanvas
,
Spectrum2DCanvas
,
AxisWidget
,
ColorSelector
paintFeatureConvexHulls_() :
Spectrum2DCanvas
paintFeaturePairConnections_() :
Spectrum2DCanvas
paintGL() :
Spectrum3DOpenGLCanvas
paintGridLines_() :
SpectrumCanvas
paintTraceConvexHulls_() :
Spectrum2DCanvas
pair_ :
FeaturePairsHandler
pair_finder_ :
PoseClusteringPairwiseMapMatcher
pair_min_quality_ :
SimplePairFinder
PairMatcher() :
PairMatcher
pairs_ :
PairMatcher
,
FeaturePairsHandler
pairsToFeatures() :
FeaturePairsXMLFile
PairType :
PairMatcher
,
PoseClusteringAffineSuperimposer
PairVectorType :
PairMatcher
Param() :
Param
param :
LayerData
param_ :
SVMWrapper
,
INIFileEditorWindow
,
TOPPBase
,
DefaultParamHandler
,
FeaturePairsHandler
,
FeatureXMLHandler
,
ParamXMLHandler
,
IdXMLFile
,
ParamEditor
param_cmdline_ :
TOPPBase
param_common_ :
TOPPBase
param_common_tool_ :
TOPPBase
param_inifile_ :
TOPPBase
param_instance_ :
TOPPBase
ParamEditor() :
ParamEditor
ParamEditorDelegate() :
ParamEditorDelegate
ParamEntry() :
Param::ParamEntry
ParameterInformation() :
TOPPBase::ParameterInformation
parameters_ :
TOPPBase
,
IdXMLFile
,
ModelDescription
ParameterTypes :
TOPPBase::ParameterInformation
ParamIterator() :
Param::ParamIterator
ParamNode() :
Param::ParamNode
ParamTree() :
ParamTree
ParamXMLHandler() :
ParamXMLHandler
parent_m_z_ :
BinnedRep
ParentFilter() :
ParentFilter
ParentPeakMower() :
ParentPeakMower
parse() :
ANDIHandler
parse_() :
XMLFile
PARSE_ERROR :
TOPPBase
parseCommandLine() :
Param
ParseError() :
ParseError
parseFormula_() :
EmpiricalFormula
parseIsotopeDistribution_() :
ElementDB
parseRange_() :
TOPPBase
parseResidue_() :
ResidueDB
parseString_() :
AASequence
parseTree() :
SuffixArraySeqan
parseTree_() :
SuffixArrayTrypticCompressed
partial_sequence_ :
SequestInfile
PARTICLEBEAM :
IonSource
passes() :
DataFilters
path() :
File
path_ :
ParamXMLHandler
path_to_file_ :
SourceFile
,
SourceFileVisualizer
pattern_score :
FeatureFinderAlgorithmPicked::PeakInfo
pattern_tolerance_ :
FeatureFinderAlgorithmPicked
PAULIONTRAP :
MassAnalyzer
PD :
IonSource
,
Precursor
peak :
FeatureFinderAlgorithmPicked::Seed
,
FeatureFinderAlgorithmPicked::IsotopePattern
Peak1D() :
Peak1D
Peak2D() :
Peak2D
peak_bound_ :
PeakPicker
peak_bound_cwt_ :
PeakPickerCWT
peak_bound_ms2_level_ :
PeakPicker
peak_bound_ms2_level_cwt_ :
PeakPickerCWT
peak_corr_bound_ :
PeakPickerCWT
peak_count_ :
MzDataHandler
,
MzXMLHandler
peak_cutoff_intercept_ :
IsotopeWaveletTransform
peak_cutoff_slope_ :
IsotopeWaveletTransform
peak_map_ :
SpectrumCheapDPCorr
peak_mass_tolerance :
ProteinIdentification::SearchParameters
peak_mass_tolerance_ :
InspectInfile
,
SequestInfile
peak_shapes_ :
PeakPickerCWT
peak_tolerance_ :
ProteinIdentificationVisualizer
PeakArea_() :
PeakPickerCWT::PeakArea_
PeakConstReferenceMapType :
PoseClusteringPairwiseMapMatcher
,
StarAlignment
PeakDensityFilter() :
PeakDensityFilter
PeakFileOptions() :
PeakFileOptions
PeakIcon() :
PeakIcon
PeakInfo() :
FeatureFinderAlgorithmPicked::PeakInfo
PeakIterator :
SignalToNoiseEstimator
,
SignalToNoiseEstimatorMeanIterative
,
SignalToNoiseEstimatorMedian
,
MzXMLHandler
PeakIterator_ :
LayerStatisticsDialog
PeakIteratorType :
AreaIterator
PeakMarker() :
PeakMarker
PeakMassType :
ProteinIdentification
PeakPicker() :
PeakPicker
PeakPickerCWT() :
PeakPickerCWT
PeakPointerArray :
PoseClusteringAffineSuperimposer
PeakReference :
MSExperiment
PEAKS :
SpectrumSettings
peaks :
FeatureFinderAlgorithmPicked::MassTrace
,
LayerData
peaks_ :
IsotopeCluster
PeakShape() :
PeakShape
PeakSpectrumCompareFunctor() :
PeakSpectrumCompareFunctor
PeakType :
SignalToNoiseEstimator
,
SignalToNoiseEstimatorMeanIterative
,
SignalToNoiseEstimatorMedian
,
MzDataHandler
,
MzXMLHandler
,
AreaIterator
,
DPeakArray
,
DPeakConstReferenceArray
,
DSpectrum
,
MSExperiment
,
MSSpectrum
,
BaseModel
,
SpectrumCanvas
pen_width_ :
AxisWidget
penalties_ :
OptimizePeakDeconvolution
,
OptimizePick
,
TwoDOptimization
PenaltyFactors() :
PenaltyFactors
PenaltyFactorsIntensity() :
PenaltyFactorsIntensity
pep_hit_ :
IdXMLFile
pep_id_ :
IdXMLFile
pep_ids_ :
IdXMLFile
PepIterator() :
PepIterator
PepNovoInfile() :
PepNovoInfile
PepNovoOutfile() :
PepNovoOutfile
PEPSIN_A :
ProteinIdentification
peptide_ :
AASequence
peptide_identification_index_ :
MascotXMLHandler
peptide_identifications_ :
OMSSAXMLHandler
peptide_mass_unit_ :
SequestInfile
peptideCount() :
EnzymaticDigestion
PeptideHit() :
PeptideHit
peptidehit_charge_ :
PeptideHitVisualizer
peptidehit_rank_ :
PeptideHitVisualizer
peptidehit_score_ :
PeptideHitVisualizer
peptidehit_sequence_ :
PeptideHitVisualizer
PeptideHitVisualizer() :
PeptideHitVisualizer
PeptideIdentification() :
PeptideIdentification
PeptideIdentificationVisualizer :
MSMetaDataExplorer
,
PeptideIdentificationVisualizer
PERCENT :
Precursor
percentage_ :
GradientVisualizer
percentage_factor_ :
SpectrumCanvas
percentages_ :
Gradient
performCrossValidation() :
SVMWrapper
persistence_id_ :
PersistentObject
PersistentObject() :
PersistentObject
ph_ :
Digestion
PHOTOMULTIPLIER :
IonDetector
pick() :
PeakPickerCWT
PickedPeak1D() :
PickedPeak1D
PickedPeakType :
InternalCalibration
,
TOFCalibration
pickExperiment() :
PeakPickerCWT
pidv_caller_ :
PeptideIdentificationVisualizer
,
ProteinIdentificationVisualizer
PILISScoring() :
PILISScoring
pka_ :
Residue
pkb_ :
Residue
pkc_ :
Residue
Point :
ROCCurve
,
DelaunayPairFinder::Point
Point_2 :
DelaunayPairFinder::GeometricTraits
,
DelaunayPairFinder::GeometricTraits::Construct_center_2
,
ConvexHull2D
Point_set_2 :
DelaunayPairFinder
PointArrayType :
ConvexHull2D
PointArrayTypeConstIterator :
ConvexHull2D
pointer :
Grid
,
Group
,
DPosition
,
HashMap::Iterator
,
HashMap::ConstIterator
,
HashMap
,
Matrix
,
AreaIterator
,
DPeakConstReferenceArray::DPeakConstReferenceArrayConstIterator
,
DPeakConstReferenceArray::DPeakConstReferenceArrayIterator
,
DPeakConstReferenceArray
,
DSpectrum
,
ExternalAllocator
Pointer :
Matrix
pointerComparator() :
PointerComparator
PointerComparator() :
PointerComparator
PointerType :
HashMap
PointMapType :
SimplePairFinder
,
BasePairFinder
,
BasePairwiseMapMatcher
,
BaseSuperimposer
,
DelaunayPairFinder
,
PoseClusteringAffineSuperimposer
,
PoseClusteringPairwiseMapMatcher
,
PoseClusteringShiftSuperimposer
points_ :
ConvexHull2D
PointType :
BasePairFinder
,
BaseSuperimposer
,
DelaunayPairFinder
,
PoseClusteringAffineSuperimposer
,
PoseClusteringShiftSuperimposer
,
SimplePairFinder
,
SpectrumCanvas
,
ConvexHull2D
pol_ :
ANDIHandler
Polarity :
IonSource
polarity_ :
IonSource
,
InstrumentSettings
POLNULL :
IonSource
Polygon :
ROCCurve
pop_back() :
DSpectrum
,
DPeakConstReferenceArray
pos :
PenaltyFactors
pos_ :
ConsensusXMLHandler
,
ROCCurve
pos_col_ :
MultiGradient
pos_range_ :
ConsensusXMLHandler
,
RangeManager
PoseClusteringAffineSuperimposer() :
PoseClusteringAffineSuperimposer
PoseClusteringPairwiseMapMatcher() :
PoseClusteringPairwiseMapMatcher
PoseClusteringShiftSuperimposer() :
PoseClusteringShiftSuperimposer
position() :
SparseVector::SparseVectorIterator
,
MultiGradient
,
SparseVector::SparseVectorConstIterator
position_ :
PoseClusteringShiftSuperimposer::Shift
,
HashMap::Iterator
,
SparseVector::SparseVectorIterator
,
SparseVector::SparseVectorConstIterator
,
DPeakConstReferenceArray::DPeakConstReferenceArrayConstIterator
,
DRawDataPoint
,
RawDataPoint1D
,
RawDataPoint2D
,
AveragePosition
,
HashMap::ConstIterator
position_range_ :
ConsensusPeak
,
ConsensusFeature
position_weighted_sum_ :
AveragePosition
PositionBoundingBoxType :
BasePairwiseMapMatcher
,
PoseClusteringShiftSuperimposer
,
ConsensusFeature
,
ConsensusPeak
,
PoseClusteringAffineSuperimposer
PositionLess() :
PeakShape::PositionLess
PositionRangeType :
RangeManager
positionScore_() :
FeatureFinderAlgorithmPicked
PositionType :
BasePairFinder
,
BasePairwiseMapMatcher
,
BaseSuperimposer
,
DelaunayPairFinder
,
IndexTuple
,
PoseClusteringAffineSuperimposer
,
PoseClusteringPairwiseMapMatcher
,
PoseClusteringShiftSuperimposer
,
SimplePairFinder
,
StarAlignment
,
DIntervalBase
,
DRange
,
ConsensusXMLHandler
,
ConsensusFeature
,
ConsensusPeak
,
DPeak
,
DRawDataPoint
,
RawDataPoint1D
,
RawDataPoint2D
,
AveragePosition
,
InterpolationModel
,
ProductModel
,
PeakPickerCWT
,
BaseModel
,
RangeManager
,
DBoundingBox
,
PoseClusteringShiftSuperimposer::Shift
,
GridCell
POSITIVE :
IonSource
Postcondition() :
Postcondition
pre_ :
MultiGradient
pre_min_ :
MultiGradient
pre_mod_name_ :
Residue
pre_size_ :
MultiGradient
pre_steps_ :
MultiGradient
precalculatedColorAt() :
MultiGradient
PreciseTime() :
PreciseTime
precision_ :
MzXMLHandler
,
DelaunayPairFinder
precisions_ :
MzDataHandler
preComputeExpensiveFunctions_() :
IsotopeWavelet
Precondition() :
Precondition
Precursor() :
Precursor
precursor_ :
SpectrumSettings
precursor_activation_energy_ :
PrecursorVisualizer
precursor_activation_method_ :
PrecursorVisualizer
precursor_energy_units_ :
PrecursorVisualizer
precursor_mass_tolerance_ :
InspectInfile
,
SequestInfile
,
MascotInfile
precursor_peak_ :
DSpectrum
precursor_tolerance :
ProteinIdentification::SearchParameters
precursor_tolerance_ :
ProteinIdentificationVisualizer
precursor_window_size_ :
PrecursorVisualizer
PRECURSORIONSCAN :
MassAnalyzer
PrecursorPeak() :
PrecursorPeak
precursorpeakcharge_ :
BinnedRep
PrecursorPeakType :
DSpectrum
,
MzXMLHandler
PrecursorVisualizer() :
PrecursorVisualizer
predict() :
SVMWrapper
preferencesDialog() :
TOPPViewBase
prefix() :
String
prefs_ :
OpenDialog
preprocess_() :
PoseClusteringAffineSuperimposer
PreprocessingFunctor() :
PreprocessingFunctor
pressure_ :
HPLC
print_duplicate_references_ :
SequestInfile
printInfo() :
PairMatcher
printState_() :
EmgFitter1D
,
LevMarqFitter1D
,
LmaGaussFitter1D
,
LmaIsotopeFitter1D
printStatistic() :
SuffixArrayTrypticCompressed
,
SuffixArray
,
SuffixArraySeqan
printStatistics() :
HierarchicalClustering
printUsage_() :
TOPPBase
priorities_ :
SimpleExtender
priority :
SimpleExtender::IndexWithPriority
priority_threshold_ :
SimpleExtender
probability_() :
ConsensusID
probability_container :
BasicStatistics
ProbabilityType :
IsotopeCluster
,
SimpleExtender
PROC :
ANDIHandler
processing_method_ :
ExperimentalSettings
ProcessingMethod() :
ProcessingMethod
processingmethod_charge_deconvolution_ :
ProcessingMethodVisualizer
processingmethod_deisotoping_ :
ProcessingMethodVisualizer
processingmethod_intensity_cutoff_ :
ProcessingMethodVisualizer
processingmethod_method_ :
ProcessingMethodVisualizer
ProcessingMethodVisualizer() :
ProcessingMethodVisualizer
prod_ :
IsotopeWaveletTransform
PRODUCTIONSCAN :
MassAnalyzer
ProductModel() :
ProductModel
progress_ :
SuffixArrayTrypticCompressed
ProgressLogger() :
ProgressLogger
projection_box_ :
Spectrum2DWidget
projection_horz_ :
Spectrum2DWidget
projection_max_ :
Spectrum2DWidget
projection_mz_ :
Spectrum2DCanvas
projection_peaks_ :
Spectrum2DWidget
projection_rt_ :
Spectrum2DCanvas
projection_sum_ :
Spectrum2DWidget
projection_vert_ :
Spectrum2DWidget
projectionInfo() :
Spectrum2DWidget
projections_2d_ :
TOPPViewBase
PROPORTIONAL :
MassAnalyzer
proportionsActivated() :
SaveImageDialog
prot_hit_ :
IdXMLFile
prot_id_ :
IdXMLFile
prot_ids_ :
IdXMLFile
PROTEASE_K :
ProteinIdentification
protein_hits_ :
ProteinIdentification
protein_identification_ :
MascotXMLHandler
,
OMSSAXMLHandler
protein_identifications_ :
ExperimentalSettings
protein_mass_filter_ :
SequestInfile
protein_name_length_ :
InspectOutfile
protein_score_type_ :
ProteinIdentification
protein_significance_threshold_ :
ProteinIdentification
ProteinHit() :
ProteinHit
proteinhit_accession_ :
ProteinHitVisualizer
proteinhit_rank_ :
ProteinHitVisualizer
proteinhit_score_ :
ProteinHitVisualizer
proteinhit_sequence_ :
ProteinHitVisualizer
ProteinHitVisualizer() :
ProteinHitVisualizer
proteinid_to_accession_ :
IdXMLFile
ProteinIdentification() :
ProteinIdentification
ProteinIdentificationVisualizer() :
ProteinIdentificationVisualizer
,
MSMetaDataExplorer
ProtonDistributionModel() :
ProtonDistributionModel
PSD :
Precursor
psi_ :
IsotopeWaveletTransform
ptm_informations_ :
PTMXMLHandler
PTMname_residues_mass_type_ :
SequestInfile
,
PepNovoInfile
,
InspectInfile
PTMXMLFile() :
PTMXMLFile
PTMXMLHandler() :
PTMXMLHandler
ptr_ :
PeptideHitVisualizer
,
ExperimentalSettingsVisualizer
,
MassAnalyzerVisualizer
,
TaggingVisualizer
,
PeptideIdentificationVisualizer
,
GradientVisualizer
,
IonSourceVisualizer
,
PrecursorVisualizer
,
InstrumentSettingsVisualizer
,
MetaInfoVisualizer
,
SourceFileVisualizer
,
IonDetectorVisualizer
,
ProteinHitVisualizer
,
SoftwareVisualizer
,
SampleVisualizer
,
MetaInfoDescriptionVisualizer
,
HPLCVisualizer
,
ProteinIdentificationVisualizer
,
DigestionVisualizer
,
ModificationVisualizer
,
AcquisitionInfoVisualizer
,
InstrumentVisualizer
,
ContactPersonVisualizer
,
ProcessingMethodVisualizer
,
AcquisitionVisualizer
,
SpectrumSettingsVisualizer
PULSECOUNTING :
IonDetector
push2Box_() :
IsotopeWaveletTransform
push2TmpBox_() :
IsotopeWaveletTransform
push_back() :
MSExperiment
,
DSpectrum
,
SparseVector
,
DPeakConstReferenceArray
PValue_() :
PairMatcher
Generated Tue Apr 1 15:36:41 2008 -- using doxygen 1.5.4
OpenMS / TOPP 1.1