- d -

d : RANSACParam
d_ : CubicSpline2d
d_intensity_ : NucleicAcidSpectrumGenerator
dashed_ : Annotation1DVerticalLineItem
data : BinaryDataArray , MzMLHandler::ChromatogramData , MzMLHandler::SpectrumData , OSBinaryDataArray , XCorrArrayType
data_ : CalibrationData , DataValue , ExposedVector< VectorElement > , FASTAContainer< TFI_Vector > , KDTreeFeatureNode , BilinearInterpolation< Key, Value > , LinearInterpolation< Key, Value > , Mobilogram , ParamValue , QTCluster , SimpleSVM , TransformationDescription , TransformationXMLFile
data_bg_ : FASTAContainer< TFI_File >
data_fg_ : FASTAContainer< TFI_File >
data_given_ : TransformationModelLinear
data_id : Observation
data_length_ : IsotopeWaveletTransform< PeakType >
data_processing_ : ChromatogramSettings , ConsensusMap , FeatureMap , MzDataHandler , MzXMLHandler , MetaInfoDescription , SpectrumSettings
data_processings_ : MSQuantifications
data_range_ : Area< N_DIM >
data_to_decode_ : MzDataHandler
data_to_encode_ : MzDataHandler
data_type : MzMLHandlerHelper::BinaryData
database : DBSearchParam , MzTabMDatabaseMetaData , MzTabMMetaData , MzTabNucleicAcidSectionRow , MzTabPeptideSectionRow , MzTabProteinSectionRow , MzTabPSMSectionRow , MzTabSmallMoleculeSectionRow
database_ : SequestInfile
database_identifier : MzTabMSmallMoleculeEvidenceSectionRow , MzTabMSmallMoleculeSectionRow
database_location_ : AccurateMassSearchEngine
database_name_ : AccurateMassSearchEngine
database_ref : MzIdentMLDOMHandler::DBSequence
database_version : DBSearchParam , MzTabNucleicAcidSectionRow , MzTabPeptideSectionRow , MzTabProteinSectionRow , MzTabPSMSectionRow , MzTabSmallMoleculeSectionRow
database_version_ : AccurateMassSearchEngine
date : MzIdentMLDOMHandler::DatabaseInput
date_ : MascotXMLHandler , PepXMLFile , ProteinIdentification
date_time : ProcessingStep
date_time_string_ : MascotXMLHandler
datetime_ : ExperimentalSettings , ExperimentalSettingsVisualizer
db : ProteinIdentification::SearchParameters
db_ : InspectInfile , OMSFileLoad , OMSFileStore , MascotInfile , MzTab::CMMzTabStream , MzTab::IDMzTabStream , ProteinIdentificationVisualizer , SqliteConnector
db_map_ : MzIdentMLDOMHandler
db_mapping_file_ : AccurateMassSearchEngine
db_mass_ : AccurateMassSearchResult
db_pos_length_ : InspectOutfile
db_search_params_ : IdentificationData
db_search_steps_ : IdentificationData
db_sq_map_ : MzIdentMLDOMHandler
db_struct_file_ : AccurateMassSearchEngine
db_version : ProteinIdentification::SearchParameters
db_version_ : MzTab::CMMzTabStream , MzTab::IDMzTabStream , ProteinIdentificationVisualizer
dbflags : CsiFingerIdMzTabWriter::CsiAdapterHit
debug_ : FeatureFinderAlgorithmPicked , MapAlignmentAlgorithmSpectrumAlignment
debug_im_file_ : SwathMapMassCorrection
debug_level_ : FeatureFinderAlgorithmMetaboIdent , FeatureFinderIdentificationAlgorithm , SiriusAdapterAlgorithm::SiriusTemporaryFileSystemObjects , TOPPBase
debug_lvl_ : BayesianProteinInferenceAlgorithm
debug_mz_file_ : SwathMapMassCorrection
debug_streams_ : LogConfigHandler
debugmatrix_ : MapAlignmentAlgorithmSpectrumAlignment
debugscorematrix_ : MapAlignmentAlgorithmSpectrumAlignment
debugtraceback_ : MapAlignmentAlgorithmSpectrumAlignment
decoded_char : MzMLHandlerHelper::BinaryData
decoded_double_list_ : MzDataHandler
decoded_list_ : MzDataHandler
decoder_ : Base64
decomp_ : MassDecomposition
decomposer_ : RealMassDecomposer , MassDecompositionAlgorithm
decon_ms1_mz_tol_ : SwathQC
deconvolution_ : PeakPickerCWT
deconvolved_spectrum_ : FLASHDeconvAlgorithm
decoy : SiriusFragmentAnnotation::SiriusTargetDecoySpectra , TransitionTSVFile::TSVTransition , LightTransition
decoy_ : OSWPeptidePrecursor
decoy_case_sensitive : DecoyHelper::DecoyStatistics
decoy_compound_ref : MetaboTargetedTargetDecoy::MetaboTargetDecoyMassMapping
decoy_count : DecoyHelper::DecoyStatistics
decoy_counts : TargetedExperiment::SummaryStatistics
decoy_file_number : MetaboTargetedAssay::TargetDecoyGroup
decoy_index : MetaboTargetedAssay::TargetDecoyGroup
decoy_index_ : ConfidenceScoring
decoy_mz : MetaboTargetedAssay::TargetDecoyGroup
decoy_pattern_ : DBSuitability
decoy_prefix_ : OpenPepXLAlgorithm , OpenPepXLLFAlgorithm , PepXMLFile
decoy_product_masses : MetaboTargetedTargetDecoy::MetaboTargetDecoyMassMapping
decoy_rt : MetaboTargetedAssay::TargetDecoyGroup
decoy_string_ : XQuestResultXMLHandler , OpenPepXLAlgorithm , OpenPepXLLFAlgorithm , PeptideIndexing , XFDRAlgorithm
decoy_type_ : ReactionMonitoringTransition
decoys_ : SimpleSearchEngineAlgorithm
DEF_COSINE_SIMILARITY : GNPSMGFFile
DEF_MERGE_BIN_SIZE : GNPSMGFFile
DEF_MSMAP_CACHE : GNPSMGFFile
DEF_PEPT_CUTOFF : GNPSMGFFile
default_array_length : MzMLHandler::ChromatogramData , MzMLHandler::SpectrumData
default_array_length_ : MzMLHandler
default_baseloss_ : Ribonucleotide
DEFAULT_BIN_OFFSET_HIRES : BinnedSpectrum
DEFAULT_BIN_OFFSET_LOWRES : BinnedSpectrum
DEFAULT_BIN_WIDTH_HIRES : BinnedSpectrum
DEFAULT_BIN_WIDTH_LOWRES : BinnedSpectrum
default_charge_ : ParentPeakMower
default_dir_ : ToolsDialog , TOPPASToolConfigDialog
default_ms_level_ : DTAFile
default_nterm_mods_ : XTandemXMLFile
default_parameters_file_ : XTandemInfile
default_processing_ : MzMLHandler
default_scan_regexp : SpectrumLookup
default_value : ParameterInformation
defaultArrayLength : Chromatogram , Spectrum , OSChromatogram , OSSpectrum
defaults_ : DefaultParamHandler
deisotope_mode_ : OpenPepXLAlgorithm , OpenPepXLLFAlgorithm
deisotoping_annotate_charge_ : TargetedSpectraExtractor
deisotoping_fragment_tolerance_ : TargetedSpectraExtractor
deisotoping_fragment_unit_ : TargetedSpectraExtractor
deisotoping_keep_only_deisotoped_ : TargetedSpectraExtractor
deisotoping_max_charge_ : TargetedSpectraExtractor
deisotoping_max_isopeaks_ : TargetedSpectraExtractor
deisotoping_min_charge_ : TargetedSpectraExtractor
deisotoping_min_isopeaks_ : TargetedSpectraExtractor
deisotoping_use_deisotoper_ : TargetedSpectraExtractor
delay_ : AcqusHandler
delay_in_seconds_ : FileWatcher
delete_buffer_ : LogStream
delim_ : MSstatsFile , TriqlerFile
delta_cn_weights_ : SequestOutfile
delta_mass : MultiplexDeltaMasses::DeltaMass , MultiplexDeltaMassesGenerator::Label
delta_mass_weights_ : SequestOutfile
delta_masses_ : MultiplexDeltaMasses
delta_masses_list_ : MultiplexDeltaMassesGenerator
denominator_ref_ : ConsensusFeature::Ratio
depth : ACNode::DepthHits
depth_and_hits : ACNode
derivatization_agent : MzTabMMetaData
derivatized_form : MzTabMSmallMoleculeEvidenceSectionRow
des : SiriusMSFile::CompoundInfo
desc_ : TOPPASBase
description : ControlledVocabulary::CVTerm , FASTAFile::FASTAEntry , ParentSequence , IsobaricQuantitationMethod::IsobaricChannelInformation , ItraqConstants::ChannelInfo , MultiplexDeltaMassesGenerator::Label , MzTabMetaData , MzTabMMetaData , MzTabMStudyVariableMetaData , MzTabNucleicAcidSectionRow , MzTabProteinSectionRow , MzTabSampleMetaData , MzTabSmallMoleculeSectionRow , MzTabStudyVariableMetaData , Param::ParamEntry , Param::ParamIterator::TraceInfo , Param::ParamNode , ParameterInformation , OSBinaryDataArray
description_ : ConsensusFeature::Ratio , FASTAFile , PepXMLFile::AminoAcidModification , ToolInfo
description_text_ : TOPPASScene
descriptions_ : ParamXMLHandler
detecting_transition : TransitionTSVFile::TSVTransition , LightTransition
detector : MzTabInstrumentMetaData
dfs_color_ : TOPPASVertex
dia_byseries_intensity_min_ : DIAScoring
dia_byseries_ppm_diff_ : DIAScoring
dia_centroided_ : DIAScoring , SONARScoring
dia_extract_window_ : DiaPrescore , DIAScoring , SONARScoring
dia_extraction_ppm_ : DIAScoring , SONARScoring
dia_nr_charges_ : DIAScoring
dia_nr_isotopes_ : DIAScoring
dia_treewidget_ : DIATreeTab
dia_widget_ : DataSelectionTabs
diascoring_ : MRMFeatureFinderScoring
diatab_controller_ : DataSelectionTabs
diff_average_mass_ : ResidueModification
diff_exponent_ : SimplePairFinder
diff_formula_ : UnimodXMLHandler , ResidueModification
diff_intercept_ : SimplePairFinder
diff_mono_mass_ : ResidueModification
diff_score : IDDecoyProbability::Transformation_
digested_db_ : Contaminants
digestion_ : IDFilter::DigestionFilter , IDFilter::PeptideDigestionFilter
digestion_enzyme : DBSearchParam , ProteinIdentification::SearchParameters
digestion_time_ : Digestion
digestionenzyme_ : DigestionVisualizer
digestionPH_ : DigestionVisualizer
digestiontemperature_ : DigestionVisualizer
digestiontime_ : DigestionVisualizer
dilution_factor : AbsoluteQuantitationStandards::featureConcentration , AbsoluteQuantitationStandards::runConcentration
DIM : RangeIntensity , RangeMobility , RangeMZ , RangeRT
dim_ : FeatureXMLHandler
dimension_name_full_ : MobilityPeak2D , Peak2D
dimension_name_short_ : MobilityPeak2D , Peak2D
dimension_unit_full_ : MobilityPeak2D , Peak2D
dimension_unit_short_ : MobilityPeak2D , Peak2D
dimensionsize_ : DistanceMatrix< Value >
dims_ : DimMapper< N_DIM >
disable : Colorizer::ColorWithUndo_
disable_parsing_ : FeatureXMLHandler
disease : MzTabSampleMetaData
dist_ : HistogramWidget , OptimizePeakDeconvolution , UniqueIdGenerator
distance : BinaryTreeNode , QTCluster::Neighbor
distance_ : MinimumDistance
distance_it_for_cluster_idx_ : GridBasedClustering< Metric >
distances_ : GridBasedClustering< Metric >
distribution_ : IsotopeDistribution
distributions_ : ProductModel< 2 >
dlg_ : GUIProgressLoggerImpl
dm_elements_2d_ : TOPPViewBase
dm_hull_2d_ : TOPPViewBase
dm_hulls_2d_ : TOPPViewBase
dm_ident_2d_ : TOPPViewBase
dm_label_2d_ : TOPPViewBase
dm_precursors_2d_ : TOPPViewBase
dm_unassigned_2d_ : TOPPViewBase
do_p_trim : IsoSpecTotalProbWrapper
document_id_ : IdXMLFile
docurl_ : ToolInfo
doi : Citation
dotprod_score_dia : OpenSwath_Scores
doWrite_ : OpenSwathOSWWriter , OpenSwathTSVWriter
dps_ : MSDataWritingConsumer
drag_start_pos_ : TOPPASTreeView
draw_group_1d_ : TOPPViewBase
draw_interesting_MZs_ : Plot1DCanvas
draw_modes_ : Plot1DCanvas
drift_time : TransitionTSVFile::TSVTransition , LightCompound
drift_time_ : MSSpectrum , Precursor , PeptideCompound
drift_time_unit_ : Mobilogram , MSSpectrum , Precursor
drift_window_low_ : Precursor
drift_window_up_ : Precursor
DRIFTTIME_NOT_SET : IMTypes
dry_run_ : TOPPASScene
dt_ : DateTime
dw_ : AcqusHandler