Here is a list of all documented class members with links to the class documentation for each member:
- d -
- data()
: ms_matrix
- DB_MATCH_TYPE
: ms_mascotresults
- DECOY_ALGORITHM
: ms_mascotoptions
- DECOY_ALGORITHM_NONE
: ms_mascotoptions
- DECOY_PEPTIDE_RANDOM
: ms_mascotoptions
- DECOY_PEPTIDE_RANDOM_DIPEP
: ms_mascotoptions
- DECOY_PEPTIDE_REVERSE
: ms_mascotoptions
- DECOY_PEPTIDE_SHUFFLE
: ms_mascotoptions
- DECOY_PROTEIN_BASED_MASK
: ms_mascotoptions
- DECOY_PROTEIN_RANDOM
: ms_mascotoptions
- DECOY_PROTEIN_RANDOM_DIPEP
: ms_mascotoptions
- DECOY_PROTEIN_REVERSE
: ms_mascotoptions
- DECOY_PROTEIN_SHUFFLE
: ms_mascotoptions
- DECOY_STATS_COUNT_TYPE
: ms_mascotresults
- defaultValues()
: ms_clusterparams
, ms_crosslinking_scope
, ms_quant_modgroup
, ms_quant_moverz
, ms_crosslinking_settings
, ms_quant_multiplex
, ms_quant_neutralloss
, ms_computeraddress
, ms_customproperty
, ms_quant_normalisation
, ms_quant_normalisation_peptide
, ms_databaseoptions
, ms_quant_normalisation_peptides
, ms_quant_normalisation_protein
, ms_connection_settings
, ms_databases
, ms_quant_normalisation_proteins
, ms_quant_numerator
, ms_datfile
, ms_quant_outliers
, ms_quant_parameters
, ms_cronjob
, ms_enzyme
, ms_quant_pepneutralloss
, ms_quant_precursor
, ms_enzymefile
, ms_quant_protocol
, ms_quant_quality
, ms_cronoptions
, ms_fragmentationrules
, ms_quant_ratio
, ms_quant_replicate
, ms_fragrulesfile
, ms_quant_reporter
, ms_quant_satellite
, ms_crosslinking_accession
, ms_libraryoptions
, ms_quant_specificity
, ms_quant_unmodified
, ms_license
, ms_taxonomychoice
, ms_taxonomyfile
, ms_crosslinking_accessions
, ms_mascotfiles
, ms_taxspeciesfiles
, ms_taxnodesfiles
, ms_mascotoptions
, ms_parserule_plus
, ms_taxonomyrules
, ms_crosslinking_configfile
, ms_masses
, ms_treecluster
, ms_umod_aminoacid
, ms_modification
, ms_umod_composition
, ms_umod_configfile
, ms_crosslinking_does_not_pair_with
, ms_modfile
, ms_umod_element
, ms_umod_elemref
, ms_obofile
, ms_umod_modbrick
, ms_umod_modification
, ms_crosslinking_filters
, ms_parserule
, ms_umod_neutralloss
, ms_umod_specificity
, ms_parseoptions
, ms_umod_xref
, ms_unigeneoptions
, ms_crosslinking_linker
, ms_dbprocessors
, ms_wwwentry
, ms_wwwoptions
, ms_processoroptions
, ms_xic
, ms_xml_parameter
, ms_crosslinking_linkers
, ms_quant_average
, ms_xml_parameters
, ms_quant_component
, ms_crosslinking_method
, ms_quant_element
, ms_quant_composition
, ms_crosslinking_monolink
, ms_quant_configfile
, ms_quant_correction
, ms_aahelper
, ms_crosslinking_parameter
, ms_quant_integration
, ms_quant_isotope
, ms_crosslinking_parameters
, ms_quant_localdef
, ms_quant_method
- deleteAccessionByNumber()
: ms_crosslinking_accessions
- deleteAltName()
: ms_umod_modification
- deleteAminoAcidByName()
: ms_umod_configfile
- deleteAminoAcidByNumber()
: ms_umod_configfile
- deleteComponentByName()
: ms_quant_method
- deleteComponentByNumber()
: ms_quant_method
- deleteCorrection()
: ms_quant_component
- deleteCronJob()
: ms_cronoptions
- deleteDatabaseByName()
: ms_databases
- deleteDatabaseByNumber()
: ms_databases
- deleteDenominatorByName()
: ms_quant_ratio
- deleteDenominatorByNumber()
: ms_quant_ratio
- deleteDirectory()
: ms_fileutilities
- deleteDoesNotPairWithByNumber()
: ms_crosslinking_linker
- deleteElement()
: ms_quant_composition
- deleteElementByName()
: ms_umod_configfile
- deleteElementByNumber()
: ms_umod_configfile
- deleteElemRef()
: ms_umod_modbrick
, ms_umod_aminoacid
, ms_umod_composition
- deleteEnzymeByName()
: ms_enzymefile
- deleteEnzymeByNumber()
: ms_enzymefile
- deleteExclusion()
: ms_quant_method
- deleteGroup()
: ms_security
- deleteIgnore()
: ms_quant_localdef
, ms_umod_modification
- deleteInstrumentByName()
: ms_fragrulesfile
- deleteInstrumentByNumber()
: ms_fragrulesfile
- deleteIonSeries()
: ms_quant_multiplex
- deleteIsotope()
: ms_quant_component
- deleteLinkerByNumber()
: ms_crosslinking_linkers
- deleteLocalDefinition()
: ms_quant_modgroup
- deleteMethodByName()
: ms_crosslinking_configfile
, ms_quant_configfile
- deleteMethodByNumber()
: ms_crosslinking_configfile
, ms_quant_configfile
- deleteModBrickByName()
: ms_umod_configfile
- deleteModBrickByNumber()
: ms_umod_configfile
- deleteModFile()
: ms_quant_modgroup
- deleteModificationByName()
: ms_modfile
, ms_umod_configfile
- deleteModificationByNumber()
: ms_modfile
, ms_umod_configfile
- deleteModificationGroupByName()
: ms_quant_component
, ms_quant_method
- deleteModificationGroupByNumber()
: ms_quant_component
, ms_quant_method
- deleteMonoLinkByNumber()
: ms_crosslinking_linker
- deleteNeutralLoss()
: ms_quant_specificity
, ms_umod_specificity
- deleteNumeratorByName()
: ms_quant_ratio
- deleteNumeratorByNumber()
: ms_quant_ratio
- deleteParameterByName()
: ms_crosslinking_parameters
, ms_quant_parameters
, ms_xml_parameters
- deleteParameterByNumber()
: ms_crosslinking_parameters
, ms_quant_parameters
, ms_xml_parameters
- deletePepNeutralLoss()
: ms_quant_specificity
, ms_umod_specificity
- deletePeptide()
: ms_quant_normalisation_peptides
- deleteProtein()
: ms_quant_normalisation_proteins
- deleteReportRatioByName()
: ms_quant_method
- deleteReportRatioByNumber()
: ms_quant_method
- deleteSeq()
: ms_quant_method
- deleteSpecificity()
: ms_quant_localdef
, ms_umod_modification
- deleteUnmodified()
: ms_quant_modgroup
- deleteUser()
: ms_security
, ms_group
- deleteXref()
: ms_umod_modification
- delNonEmpty()
: ms_customproperty
- delProp()
: ms_customproperty
- delPropByNumber()
: ms_customproperty
- delPropStart()
: ms_customproperty
- DEPRECATED_MAX_CORES_PER_LICENSE
: ms_processors
- destroy()
: ms_session
- detectOutliers()
: ms_quant_stats
- diagonalMatrix()
: ms_matrix
- DISTINCT_PEPTIDE_FLAGS
: ms_protein
- DM_BOTH
: ms_mascotresults
- DM_FASTA
: ms_mascotresults
- DM_FASTA_FIRST_PASS
: ms_mascotresults
- DM_FASTA_SECOND_PASS
: ms_mascotresults
- DM_SPECTRAL_LIBRARY
: ms_mascotresults
- DO_NORMAL
: ms_http_client_search
- DO_WITH_IONS
: ms_http_client_search
- doesFileExist()
: ms_fileutilities
- doesSectionExist()
: ms_mascotresfile
- downloadDaemonResultsFile()
: ms_http_client_search
- DownloadOption
: ms_http_client_search
- downloadPercolatorFile()
: ms_http_client_search
- downloadResultsFile()
: ms_http_client_search
- downloadXmlResultsFile()
: ms_http_client_search
- DPF_CHARGE
: ms_protein
- DPF_MODS
: ms_protein
- DPF_NODUPSAMEQUERY
: ms_protein
- DPF_SEQUENCE
: ms_protein
- DPF_UNIQUE
: ms_protein
- dropAccession()
: ms_quant_normalisation_protein
- dropAccessions()
: ms_crosslinking_method
- dropAllChargeStates()
: ms_quant_integration
, ms_quant_precursor
- dropAllChargeStatesThreshold()
: ms_quant_integration
- dropAllowElutionShift()
: ms_quant_precursor
, ms_quant_integration
- dropAllowMassTimeMatch()
: ms_quant_precursor
- dropApproved()
: ms_umod_modification
- dropAverage()
: ms_quant_moverz
- dropAvgeMass()
: ms_umod_aminoacid
, ms_umod_composition
, ms_umod_element
, ms_umod_modbrick
- dropClassification()
: ms_umod_specificity
- dropCode()
: ms_umod_neutralloss
- dropCoefficient()
: ms_quant_numerator
- dropComp()
: ms_quant_method
- dropCompositionString()
: ms_umod_composition
- dropConstrainSearch()
: ms_quant_method
- dropDatabaseName()
: ms_crosslinking_accession
- dropDateTimeModified()
: ms_umod_modification
- dropDateTimePosted()
: ms_umod_modification
- dropDelta()
: ms_quant_localdef
, ms_umod_modification
- dropDescription()
: ms_quant_method
, ms_crosslinking_method
, ms_umod_neutralloss
, ms_xml_parameter
- dropElement()
: ms_quant_correction
- dropElutionProfileCorrelationThreshold()
: ms_quant_integration
- dropElutionTimeDelta()
: ms_quant_integration
- dropElutionTimeDeltaUnit()
: ms_quant_integration
- dropEntry()
: ms_wwwoptions
- dropExcludeInternalLabel()
: ms_quant_multiplex
- dropExcludeIsobaricFragments()
: ms_quant_multiplex
- dropFileIndex()
: ms_quant_component
- dropFilters()
: ms_crosslinking_method
- dropFlag()
: ms_quant_neutralloss
, ms_umod_neutralloss
- dropFullName()
: ms_umod_modbrick
, ms_umod_element
, ms_umod_modification
, ms_umod_aminoacid
- dropGroupOfPoster()
: ms_umod_modification
- dropHidden()
: ms_umod_specificity
- dropIntegration()
: ms_quant_method
- dropIonIntensityThreshold()
: ms_quant_multiplex
- dropIonSeries()
: ms_quant_multiplex
- dropIsolatedPrecursor()
: ms_quant_quality
- dropIsolatedPrecursorThreshold()
: ms_quant_quality
- dropLinkers()
: ms_crosslinking_method
- dropMassDelta()
: ms_quant_integration
- dropMassDeltaUnit()
: ms_quant_integration
- dropMatchedRho()
: ms_quant_integration
- dropMethod()
: ms_quant_integration
, ms_quant_outliers
, ms_quant_normalisation
- dropMinimumA1()
: ms_quant_quality
- dropMinIonPairs()
: ms_quant_multiplex
- dropMinNumPeptides()
: ms_quant_method
- dropMinPrecursorCharge()
: ms_quant_quality
- dropMiscNotes()
: ms_umod_specificity
, ms_umod_modification
- dropMode()
: ms_quant_modgroup
- dropModFileName()
: ms_crosslinking_linker
, ms_crosslinking_does_not_pair_with
- dropModifications()
: ms_quant_satellite
- dropMonoisotopic()
: ms_quant_moverz
- dropMonoMass()
: ms_umod_element
, ms_umod_aminoacid
, ms_umod_modbrick
, ms_umod_composition
- dropMoverz()
: ms_quant_component
- dropName()
: ms_quant_component
, ms_quant_ratio
, ms_xml_parameter
, ms_quant_method
, ms_crosslinking_method
, ms_quant_modgroup
, ms_quant_numerator
- dropNew()
: ms_quant_isotope
- dropNormalisation()
: ms_quant_method
- dropNumber()
: ms_quant_element
, ms_umod_elemref
- dropNumPeptides()
: ms_quant_average
- dropOld()
: ms_quant_isotope
- dropOutliers()
: ms_quant_method
- dropPairsWith()
: ms_umod_neutralloss
- dropParseRule()
: ms_parseoptions
- dropPepThresholdType()
: ms_quant_quality
- dropPepThresholdValue()
: ms_quant_quality
- dropPeptides()
: ms_quant_normalisation
- dropPosition()
: ms_umod_specificity
, ms_quant_specificity
, ms_quant_unmodified
- dropPrecursorRange()
: ms_quant_integration
- dropProcessingOptions()
: ms_quant_integration
- dropProteinRatioType()
: ms_quant_method
- dropProteins()
: ms_quant_normalisation
- dropProtocol()
: ms_quant_method
- dropProtScoreType()
: ms_quant_method
- dropQuality()
: ms_quant_method
- dropRecordID()
: ms_umod_modification
- dropReferenceAccession()
: ms_quant_average
- dropReferenceAmount()
: ms_quant_average
- dropReferenceDatabase()
: ms_quant_average
- dropReportDetail()
: ms_quant_method
- dropReporterTol()
: ms_quant_reporter
- dropReporterTolUnit()
: ms_quant_reporter
- dropRequireBoldRed()
: ms_quant_method
- dropRequired()
: ms_quant_modgroup
, ms_quant_pepneutralloss
- dropSatellite()
: ms_quant_component
- dropScope()
: ms_crosslinking_method
- dropSelection()
: ms_quant_average
- dropSequence()
: ms_quant_normalisation_peptide
- dropSettings()
: ms_crosslinking_method
- dropShift()
: ms_quant_correction
- dropShowSubSets()
: ms_quant_method
- dropSigThresholdValue()
: ms_quant_method
- dropSimpleRatio()
: ms_quant_integration
- dropSite()
: ms_quant_unmodified
, ms_umod_specificity
, ms_quant_specificity
- dropSource()
: ms_umod_xref
, ms_quant_integration
- dropSpecGroup()
: ms_umod_specificity
- dropSpectralLibrary()
: ms_libraryoptions
- dropStrategy()
: ms_crosslinking_method
- dropSymbol()
: ms_umod_elemref
, ms_quant_element
- dropText()
: ms_umod_xref
- dropThreeLetter()
: ms_umod_aminoacid
- dropTitle()
: ms_umod_modbrick
, ms_umod_aminoacid
, ms_umod_element
, ms_quant_localdef
, ms_umod_modification
- dropTotalIntensity()
: ms_quant_quality
- dropTotalIntensityThreshold()
: ms_quant_quality
- dropType()
: ms_quant_correction
- dropUniquePepseq()
: ms_quant_quality
- dropUrl()
: ms_umod_xref
- dropUsernameOfPoster()
: ms_umod_modification
- dropValue()
: ms_crosslinking_accession
- dropXicMaxWidth()
: ms_quant_integration
- dropXicSmoothing()
: ms_quant_integration
- dropXicThreshold()
: ms_quant_integration
- DS_COUNT_PSM
: ms_mascotresults
- DS_COUNT_SEQUENCE
: ms_mascotresults
- dumpCDB()
: ms_peptidesummary
- DUPE_Duplicate
: ms_protein
- DUPE_DuplicateSameQuery
: ms_protein
- DUPE_HighestScoringDuplicate
: ms_protein
- DUPE_Ignored
: ms_protein
- DUPE_NotDuplicate
: ms_protein
- DUPLICATE
: ms_protein