Here is a list of all documented class members with links to the class documentation for each member:
- i -
- identityMatrix()
: ms_matrix
- IFLG_ADDMISSINGOPTIONS
: ms_datfile
- IFLG_ADDPERCOLATOROPT
: ms_datfile
- IFLG_ADDREPORTAUTO
: ms_datfile
- IFLG_DEFAULTNEWINSTALL
: ms_datfile
- IFLG_DEFAULTUPGRADE
: ms_datfile
- IFLG_UPDATEAPACHEFORKOPT
: ms_datfile
- IFLG_UPDATECLUSTER
: ms_datfile
- IFLG_UPDATEDBMANAGERPERLPATH
: ms_datfile
- IFLG_UPDATEESTTAX
: ms_datfile
- IFLG_UPDATEEXECAFTERSEARCH
: ms_datfile
- IFLG_UPDATEMSPEPSEARCHOPTS
: ms_datfile
- IFLG_UPDATENCBIHTTPS
: ms_datfile
- IFLG_UPDATEPARSERULES
: ms_datfile
- IFLG_UPDATEPERCOLATORFEATS
: ms_datfile
- IFLG_UPDATEPRIDECONTAMINANTS
: ms_datfile
- IFLG_UPDATEPROTFAMILYSWITCH
: ms_datfile
- IFLG_UPDATESWISSPROT
: ms_datfile
- IFLG_UPDATETAXONOMY
: ms_datfile
- IH_INCLUDE_TOP_10_MATCHES
: ms_mascotresults
- IH_INCLUDE_TOP_MATCHES
: ms_mascotresults
- includeProteinPeptideRatioKeys()
: ms_ms2quantitation
- inErrorTolerant()
: ms_modification
, ms_umod_specificity
- initGroupChargeStates()
: ms_ms1quantitation
- initialiseBaseSettings()
: ms_quantitation
- inLongList()
: ms_modification
, ms_umod_specificity
- inShortList()
: ms_modification
, ms_umod_specificity
- INST_FLAGS
: ms_datfile
- INTENSITY
: ms_mascotresults
- IONS_HISTOGRAM
: ms_mascotresults
- isAbortSet()
: ms_http_helper_progress
- isAccountEnabled()
: ms_user
- isActive()
: ms_databaseoptions
- isAllChargeStates()
: ms_quant_integration
, ms_quant_precursor
- isAllowElutionShift()
: ms_quant_integration
, ms_quant_precursor
- isAllowMassTimeMatch()
: ms_quant_precursor
- isApproved()
: ms_umod_modification
- isASimilarProtein()
: ms_protein
- isAutoSelectCharge()
: ms_mascotoptions
- isAvailable()
: ms_parserule
- isAverageProtocol()
: ms_ms1quantitation
- isBackboneSeries()
: ms_fragmentationrules
- isBreaking()
: ms_progress_info
- isCharged2Plus()
: ms_fragmentationrules
- isCharged3Plus()
: ms_fragmentationrules
- isComplete()
: ms_http_helper_progress
- isComponentIdentified()
: ms_ms1quant_match_component
- isConcatRefFileLines()
: ms_taxonomyrules
- isConstrainSearch()
: ms_quant_method
- isCreating()
: ms_tinycdb
- isCronEnabled()
: ms_cronoptions
- isCTerminal()
: ms_fragment
- isDatabaseTypeAvailable()
: ms_mascotresfile
- isDataCached()
: ms_peptidesummary
, ms_ms1quantitation
- isDayOfMonth()
: ms_cronjob
- isDayOfWeek()
: ms_cronjob
- isDBLevelTaxId()
: ms_taxonomyrules
- isDefaultTargetFDRPercentage()
: ms_mascotoptions
- isDirectory()
: ms_fileutilities
- isEmailErrorsEnabled()
: ms_mascotoptions
- isEmailUsersEnabled()
: ms_mascotoptions
- isEmPAIallowed()
: ms_mascotresults
- isEnabled()
: ms_clusterparams
, ms_cronjob
, ms_taxonomyrules
- isErrorTolerant()
: ms_mascotresfile
- isExcluded()
: ms_peptide_quant_ratio
- isExcludeInternalLabel()
: ms_quant_multiplex
- isExcludeIsobaricFragments()
: ms_quant_multiplex
- isFastaPermitted()
: ms_session
, ms_security_tasks
- isFileWritable()
: ms_fileutilities
- isFlag()
: ms_quant_neutralloss
, ms_umod_neutralloss
- isForkForUnixApache()
: ms_mascotoptions
- isFromAlpha()
: ms_fragment
- isFromBeta()
: ms_fragment
- isFromRefFile()
: ms_taxonomyrules
- isFromSubstitutions()
: ms_modfile
- isGeneratedMonoLinker()
: ms_modification
- isHidden()
: ms_modification
, ms_umod_specificity
- isHitRatioExcluded()
: ms_ms1quant_match
- isHitRatioOutlier()
: ms_ms1quant_match
- isHitRatioUsedForAverage()
: ms_ms1quant_match
- isHour()
: ms_cronjob
- isImmonium()
: ms_fragment
- isIncluded()
: ms_ms1quant_match_ratio
- isIncludedIn()
: ms_taxonomytree
- isIndependent()
: ms_enzyme
- isInfinite()
: ms_peptide_quant_ratio
- isInIgnoreDupeAccessionList()
: ms_mascotoptions
- isInternal()
: ms_fragment
- isIsolatedPrecursor()
: ms_quant_quality
- isIteratePMFIntensities()
: ms_mascotoptions
- isLabelAll()
: ms_mascotoptions
- isLicenseValid()
: ms_license
- isLocalRefFile()
: ms_databaseoptions
- isLockMemory()
: ms_databaseoptions
- isLogicalCPUAvailableForMascot()
: ms_processors
- isLogNormal()
: ms_protein_quant_ratio
- isLoopLinker()
: ms_modification
- isMatchedToCalculatedPeak()
: ms_spectral_lib_peak
- isMatchOppositeCrosslinkPairs()
: ms_mascotoptions
- isMemoryMapFiles()
: ms_databaseoptions
- isMethodCompatible()
: ms_quant_method
- isMinute()
: ms_cronjob
- isMissing()
: ms_peptide_quant_ratio
, ms_protein_quant_ratio
- isMitochondrialTranslation()
: ms_taxonomyrules
- isMonthOfYear()
: ms_cronjob
- isMoveOldDbToOldDir()
: ms_mascotoptions
- isMSMS()
: ms_mascotresfile
- isNA()
: ms_mascotresults
- isNeutralLossSeries()
: ms_fragmentationrules
- isNil()
: ms_peptide_quant_key
- isNoneFound()
: ms_enzymefile
- isNTerminal()
: ms_fragment
- isOk()
: ms_http_helper_return
- isOpenForReading()
: ms_tinycdb
- isPeptideComponentMatch()
: ms_peptidesummary
- isPeptideModificationMatch()
: ms_peptidesummary
- isPeptideQualityOK()
: ms_quant_helper
- isPeptideQuantifiable()
: ms_quant_helper
- isPeptideRatioExcluded()
: ms_customquantitation
, ms_ms2quantitation
, ms_quantitation
- isPeptideUnique()
: ms_peptidesummary
, ms_mascotresults
, ms_proteinsummary
- isPercolator()
: ms_mascotoptions
- isPercolatorUseProteins()
: ms_mascotoptions
- isPercolatorUseRT()
: ms_mascotoptions
- isPermitted()
: ms_session
, ms_security_task
, ms_security_tasks
- isPermitted_double()
: ms_security_task
, ms_security_tasks
, ms_session
- isPermitted_long()
: ms_session
, ms_security_task
, ms_security_tasks
- isPermitted_string()
: ms_session
, ms_security_task
, ms_security_tasks
- isPMF()
: ms_mascotresfile
- isPMFMixture()
: ms_protein
- isPmfQueryUsed()
: ms_proteinsummary
- isPossibleToCreate()
: ms_tinycdb
- isPrecursorNL()
: ms_fragment
- isPrimaryLogicalProcessor()
: ms_processors
- isPrivacyEnabled()
: ms_umod_modification
- isPrivate()
: ms_umod_modification
- isProcessAffinitySupported()
: ms_processors
- isReferenceUserSelected()
: ms_ms1quant_average_results
- isRegular()
: ms_fragment
- isRemoveOldIndexFiles()
: ms_mascotoptions
- isReportDetail()
: ms_quant_method
- isRequireBoldRed()
: ms_mascotoptions
, ms_quant_method
- isRequired()
: ms_quant_pepneutralloss
, ms_quant_modgroup
- isResidueModified()
: ms_masses
, ms_modification
- isSame()
: ms_masses
- isSameAs()
: ms_umod_composition
, ms_umod_modification
, ms_umod_specificity
, ms_umod_xref
- isSamePeptideStr()
: ms_peptide
- isSameSummedModsStr()
: ms_peptide
- isSameVarModsStr()
: ms_peptide
- isSaveEveryLastQueryAsc()
: ms_mascotoptions
- isSaveLastQueryAsc()
: ms_mascotoptions
- isSectionAvailable()
: ms_unigeneoptions
, ms_cronoptions
, ms_processoroptions
, ms_libraryoptions
, ms_wwwoptions
, ms_mascotoptions
, ms_parseoptions
, ms_databases
, ms_clusterparams
, ms_taxonomyrules
- isSecurityEnabled()
: ms_session
, ms_security_options
- isSemiSpecific()
: ms_enzyme
- isSeriesUsed()
: ms_fragmentationrules
- isSet()
: ms_ms1quant_match_ratio
- isShowAllFromErrorTolerant()
: ms_mascotoptions
- isShowSubsets()
: ms_mascotoptions
- isSignificant()
: ms_protein_quant_ratio
- isSimilarProtein()
: ms_protein
- isSimpleRatio()
: ms_quant_integration
- isSinglyCharged()
: ms_fragmentationrules
- isSpeciesDescendantOf()
: ms_taxonomytree
- isSQ()
: ms_mascotresfile
- isStarted()
: ms_http_helper_progress
- isStoreModPermutations()
: ms_mascotoptions
- isSubstitution()
: ms_modification
- isSuspectAssignment()
: ms_spectral_lib_peak
- isTaskExists()
: ms_security
, ms_security_tasks
- isThreadedLogicalProcessor()
: ms_processors
- isTimedOut()
: ms_session
- isTotalIntensity()
: ms_quant_quality
- isUnigene()
: ms_protein
- isUniquePepseq()
: ms_quant_quality
- isUnixDirPermDefined()
: ms_mascotoptions
- isUsedForAverage()
: ms_ms1quant_match_ratio
- isUseHTTPProxyForFTP()
: ms_mascotoptions
, ms_connection_settings
- isUseHTTPProxyForHTTPS()
: ms_connection_settings
, ms_mascotoptions
- isUsePeptideSummary()
: ms_mascotresults_params
- isUseProcessesNotThreads()
: ms_processors
- isUserExists()
: ms_security
- isUserInGroup()
: ms_group
- isValid()
: ms_ms1quant_match_ratio
, ms_errors
, ms_spectral_lib_peak
, ms_errs
, ms_fragmentationrules
, ms_enzyme
- isZero()
: ms_matrix