Here is a list of all documented class members with links to the class documentation for each member:
- a -
- abortedByUser()
: ms_http_helper_return
- addComponent()
: ms_ms1quant_match
- addCreatedComponent()
: ms_ms1quant_match
- addCutter()
: ms_enzyme
- addDoubleParam()
: ms_security_task
- addExperimentalData()
: ms_fragmentvector
- addHeaderField()
: ms_quantitation
- addLogEventsHandler()
: ms_loggingmonitor
- addLongParam()
: ms_security_task
- addMatchInferred()
: ms_ms1quantitation
- addMatchPeptide()
: ms_ms1quantitation
- addMatchStatus()
: ms_ms1quantitation
- addNewGroup()
: ms_security
- addNewUser()
: ms_security
- addPeaks()
: ms_spectral_lib_peak_list
- addPeptideQuantKey()
: ms_customquantitation
- addPeptideQuantKeys()
: ms_customquantitation
- addPeptideRatio()
: ms_customquantitation
- addPermittedTask()
: ms_group
- addRawFileField()
: ms_quantitation
- addStringParam()
: ms_security_task
- addSubtask()
: ms_progress_info
- addTask()
: ms_security_tasks
- addToCatalog()
: ms_log
- addUser()
: ms_group
- allComponentsIdentified()
: ms_ms1quant_match
- ANNOT_LVL_CANNOT_ANNOTATE
: ms_spectral_lib_peak_list
- ANNOT_LVL_NONE
: ms_spectral_lib_peak_list
- ANNOT_LVL_QUESTION_MARKS
: ms_spectral_lib_peak_list
- ANNOT_LVL_SOME_PEAKS
: ms_spectral_lib_peak_list
- ANNOTATE_NONE
: ms_spectral_lib_entry
- ANNOTATE_REPLACE_ALL
: ms_spectral_lib_entry
- ANNOTATE_REPLACE_IF_ALL_EMPTY
: ms_spectral_lib_entry
- ANNOTATE_REPLACE_QUESTION_MARKS
: ms_spectral_lib_entry
- annotatePeaks()
: ms_spectral_lib_entry
, ms_spectral_lib_peak_list
- anyBoldRedPeptides()
: ms_protein
- anyEmPAI()
: ms_peptidesummary
, ms_mascotresults
- anyMatchToQuery()
: ms_protein
- anyMatchToQueryAndP()
: ms_protein
- anyMSMS()
: ms_mascotresfile
- anyNLseriesUsed()
: ms_fragmentationrules
- anyNumDiscoveredMods()
: ms_mascotresults
- anyPeptideSummaryMatches()
: ms_mascotresfile
- anyPercolatorResults()
: ms_peptide
- anyPMF()
: ms_mascotresfile
- anySQ()
: ms_mascotresfile
- anyTag()
: ms_mascotresfile
- append()
: ms_http_client_mime
, ms_linker_site_vector
, ms_peptide_quant_key_vector
- appendAccession()
: ms_crosslinking_accessions
- appendAltName()
: ms_umod_modification
- appendAminoAcid()
: ms_umod_configfile
- appendComponent()
: ms_quant_method
- appendCorrection()
: ms_quant_component
- appendCronJob()
: ms_cronoptions
- appendDatabase()
: ms_databases
, ms_processoroptions
- appendDenominator()
: ms_quant_ratio
- appendDoesNotPairWith()
: ms_crosslinking_linker
- appendElement()
: ms_quant_composition
, ms_umod_configfile
- appendElemRef()
: ms_umod_aminoacid
, ms_umod_composition
, ms_umod_modbrick
- appendEntry()
: ms_taxonomyfile
, ms_wwwoptions
- appendEnzyme()
: ms_enzymefile
- appendErrors()
: ms_mascotresfile
, ms_errs
, ms_errors
- appendExcludeTaxonomy()
: ms_taxonomychoice
- appendExclusion()
: ms_quant_method
- appendFile()
: ms_http_client_mime
- appendFragment()
: ms_fragmentvector
- appendGencodeFile()
: ms_taxonomyrules
- appendIgnore()
: ms_quant_localdef
, ms_umod_modification
- appendIgnoreDupeAccession()
: ms_mascotoptions
- appendIgnoreMass()
: ms_modification
- appendIncludeTaxonomy()
: ms_taxonomychoice
- appendInstrument()
: ms_fragrulesfile
- appendIonSeries()
: ms_quant_multiplex
- appendIsotope()
: ms_quant_component
- appendLinker()
: ms_crosslinking_linkers
- appendLocalDefinition()
: ms_quant_modgroup
- appendMethod()
: ms_crosslinking_configfile
, ms_quant_configfile
- appendModBrick()
: ms_umod_configfile
- appendModFile()
: ms_quant_modgroup
- appendModification()
: ms_umod_configfile
, ms_modfile
, ms_modvector
- appendModificationGroup()
: ms_quant_method
, ms_quant_component
- appendModifications()
: ms_modvector
- appendModifiedResidue()
: ms_modification
- appendMonoLink()
: ms_crosslinking_linker
- appendNeutralLoss()
: ms_quant_specificity
, ms_umod_specificity
- appendNoBreakDescLineIf()
: ms_taxonomyrules
- appendNodesFile()
: ms_taxonomyrules
- appendNumerator()
: ms_quant_ratio
- appendParameter()
: ms_crosslinking_parameters
, ms_quant_parameters
- appendPepNeutralLoss()
: ms_umod_specificity
, ms_quant_specificity
- appendPeptide()
: ms_quant_normalisation_peptides
- appendPerDbSrcRule()
: ms_taxonomyrules
- appendPrefixRemove()
: ms_taxonomyrules
- appendProcessor()
: ms_processoroptions
- appendProperty()
: ms_customproperty
- appendProtein()
: ms_quant_normalisation_proteins
- appendReportNumberChoice()
: ms_mascotoptions
- appendReportRatio()
: ms_quant_method
- appendResfile()
: ms_mascotresfile
- appendSampleValue()
: ms_shapiro_wilk
- appendSeq()
: ms_quant_method
- appendSpeciesFile()
: ms_taxonomyrules
- appendSpecificity()
: ms_quant_localdef
, ms_umod_modification
- appendStrFile()
: ms_taxonomyrules
- appendSubCluster()
: ms_clusterparams
- appendSuffixRemove()
: ms_taxonomyrules
- appendTargetFDRPercentage()
: ms_mascotoptions
- appendText()
: ms_customproperty
- appendThreadProcessorID()
: ms_dbprocessors
- appendUnmodified()
: ms_quant_modgroup
- appendXref()
: ms_umod_modification
- applyFixedMods()
: ms_masses
- applyIsotopes()
: ms_masses
- applyVisibility()
: ms_umod_configfile
- arithmeticMean()
: ms_quant_stats
- arithmeticStandardDeviation()
: ms_quant_stats
- arithmeticStandardErrorOfMean()
: ms_quant_stats
- arithmeticStandardErrorOfMedian()
: ms_quant_stats
- asText()
: ms_spectral_lib_peak_list
, ms_spectral_lib_peak