\name{zzz-DTTCompatibility-class} \docType{class} \alias{zzz-DTTCompatibility-class} % generic accessors \alias{accession} \alias{accessions_assnlist} \alias{accessionVersion} \alias{action} \alias{action_assn} \alias{actionMeasurement_assn} \alias{activityDate} \alias{address} \alias{adjustments_assnlist} \alias{affiliation_assnref} \alias{affxCategory} \alias{affxEnd} \alias{affxImage} \alias{affxOrder} \alias{affxPerson} \alias{affxRow} \alias{affxSequence} \alias{affxStart} \alias{affxText} \alias{affxTitle} \alias{analysisResults_assnreflist} \alias{annotations_assnlist} \alias{array_assnlist} \alias{array_assnref} \alias{arrayDesign} \alias{arrayDesign_assnlist} \alias{arrayDesign_assnref} \alias{arrayDesign_package} \alias{arrayDesign_ref} \alias{arrayGroup} \alias{arrayGroup_assnlist} \alias{arrayGroup_assnref} \alias{arrayGroup_ref} \alias{arrayIdentifier} \alias{arrayManufacture} \alias{arrayManufacture_assnlist} \alias{arrayManufactureDeviation} \alias{arrayManufactureDeviations_assnlist} \alias{arrayManufacture_ref} \alias{arrayManufacturers_assnreflist} \alias{array_package} \alias{array_ref} \alias{arrays_assnreflist} \alias{arraySpacingX} \alias{arraySpacingY} \alias{arrayXOrigin} \alias{arrayYOrigin} \alias{associations_assnlist} \alias{audit} \alias{auditAndSecurity_package} \alias{auditTrail_assnlist} \alias{authors} \alias{barcode} \alias{basis} \alias{bibliographicReference} \alias{bibliographicReferences_assnlist} \alias{bioAssay_assnlist} \alias{bioAssay_assnref} \alias{bioAssayCreation} \alias{bioAssayCreation_assn} \alias{bioAssayData_assnlist} \alias{bioAssayData_assnreflist} \alias{bioAssayDataCluster} \alias{bioAssayDataCluster_assnlist} \alias{bioAssayDataCluster_ref} \alias{bioAssayData_package} \alias{bioAssayDataSources_assnreflist} \alias{bioAssayDimension} \alias{bioAssayDimension_assnlist} \alias{bioAssayDimension_assnref} \alias{bioAssayDimension_ref} \alias{bioAssayFactorValues_assnreflist} \alias{bioAssayMap} \alias{bioAssayMap_assnlist} \alias{bioAssayMapping} \alias{bioAssayMapping_assn} \alias{bioAssayMap_ref} \alias{bioAssayMaps_assnreflist} \alias{bioAssayMapTarget_assnref} \alias{bioAssay_package} \alias{bioAssays_assnreflist} \alias{bioAssayTreatment} \alias{bioAssayTreatments_assnlist} \alias{bioAssayTuple} \alias{bioAssayTuples_assnlist} \alias{bioDataCube} \alias{bioDataTuples} \alias{bioDataValues_assn} \alias{bioEvent_package} \alias{biologicalCharacteristics_assnreflist} \alias{bioMaterial_assnlist} \alias{bioMaterial_assnref} \alias{bioMaterialMeasurement} \alias{bioMaterial_package} \alias{bioMaterialPlateCol} \alias{bioMaterialPlateIdentifier} \alias{bioMaterialPlateRow} \alias{bioSample} \alias{bioSample_ref} \alias{bioSequence} \alias{bioSequence_assnlist} \alias{bioSequence_package} \alias{bioSequence_ref} \alias{bioSource} \alias{bioSource_ref} \alias{bqs_package} \alias{category_assn} \alias{channel} \alias{channel_assnlist} \alias{channel_assnref} \alias{channel_ref} \alias{channels_assnreflist} \alias{characteristics_assnlist} \alias{clusterBioAssayData_assnref} \alias{column} \alias{componentCompounds_assnlist} \alias{composite_assnref} \alias{compositeCompositeMap} \alias{compositeCompositeMap_assnlist} \alias{compositeCompositeMap_ref} \alias{compositeCompositeMaps_assnreflist} \alias{compositeGroup} \alias{compositeGroup_assnlist} \alias{compositeGroup_ref} \alias{compositeGroups_assnreflist} \alias{compositePosition} \alias{compositePositionSources_assnlist} \alias{compositeSequence} \alias{compositeSequence_assnlist} \alias{compositeSequence_assnref} \alias{compositeSequenceDimension} \alias{compositeSequenceDimension_ref} \alias{compositeSequence_ref} \alias{compositeSequences_assnreflist} \alias{compound} \alias{compound_assnlist} \alias{compound_assnref} \alias{compoundIndices_assnlist} \alias{compoundMeasurement} \alias{compoundMeasurements_assnlist} \alias{compound_ref} \alias{concentrationUnit} \alias{confidenceIndicators_assnreflist} \alias{contact_assnlist} \alias{contacts_assnreflist} \alias{containedFeatures_assnreflist} \alias{controlFeatures_assnreflist} \alias{controlledFeatures_assnreflist} \alias{controlType_assn} \alias{coordinate_assn} \alias{database} \alias{database_assnlist} \alias{database_assnref} \alias{databaseEntry} \alias{database_ref} \alias{databaseReferences_assnlist} \alias{dataExternal} \alias{dataExternal_assn} \alias{dataFormat} \alias{dataFormatInfoURI} \alias{dataInternal} \alias{dataInternal_assn} \alias{dataType_assn} \alias{datum} \alias{datum_assn} \alias{defaultValue_assn} \alias{defectType_assn} \alias{deltaX} \alias{deltaY} \alias{derivedBioAssay} \alias{derivedBioAssayData} \alias{derivedBioAssayData_assnreflist} \alias{derivedBioAssayData_ref} \alias{derivedBioAssayMap_assnreflist} \alias{derivedBioAssay_ref} \alias{derivedSignal} \alias{derivedSignal_ref} \alias{description} \alias{description_package} \alias{descriptions_assnlist} \alias{designElement_assnref} \alias{designElementDimension_assnlist} \alias{designElementDimension_assnref} \alias{designElementMapping} \alias{designElementMapping_assn} \alias{designElementMaps_assnreflist} \alias{designElement_package} \alias{designElementTuple} \alias{designElementTuples_assnlist} \alias{designProviders_assnreflist} \alias{distanceUnit} \alias{distanceUnit_assn} \alias{editor} \alias{email} \alias{error} \alias{error_ref} \alias{expectedValue} \alias{expectedValue_ref} \alias{experiment} \alias{experimentalFactor} \alias{experimentalFactor_ref} \alias{experimentalFactors_assnlist} \alias{experiment_assnlist} \alias{experimentDesign} \alias{experimentDesigns_assnlist} \alias{experiment_package} \alias{exportedFromDB} \alias{exportedFromServer} \alias{exportID} \alias{exportName} \alias{externalLIMS_assn} \alias{externalReference} \alias{externalReference_assn} \alias{factorValue} \alias{factorValue_ref} \alias{factorValues_assnlist} \alias{failed} \alias{failed_ref} \alias{failTypes_assnlist} \alias{fax} \alias{feature} \alias{feature_assnref} \alias{featureDefect} \alias{featureDefects_assnlist} \alias{featureDimension} \alias{featureDimension_ref} \alias{featureExtraction} \alias{featureExtraction_assn} \alias{featureGroup} \alias{featureGroup_ref} \alias{featureGroups_assnlist} \alias{featureHeight} \alias{featureInformation} \alias{featureInformationSources_assnlist} \alias{featureLength} \alias{featureLIMSs_assnlist} \alias{featureLocation} \alias{featureLocation_assn} \alias{feature_ref} \alias{featureReporterMap} \alias{featureReporterMap_assnlist} \alias{featureReporterMap_ref} \alias{featureReporterMaps_assnreflist} \alias{features_assnlist} \alias{featureShape_assn} \alias{featureWidth} \alias{fiducial} \alias{fiducials_assnlist} \alias{fiducialType_assn} \alias{filenameURI} \alias{firstName} \alias{format_assn} \alias{hardware} \alias{hardwareApplication} \alias{hardwareApplications_assnlist} \alias{hardware_assnlist} \alias{hardware_assnref} \alias{hardwareManufacturers_assnreflist} \alias{hardware_ref} \alias{hardwares_assnreflist} \alias{higherLevelAnalysis_package} \alias{hybridization} \alias{identifier} \alias{identifierLIMS_assn} \alias{imageAcquisition} \alias{image_ref} \alias{images_assnreflist} \alias{immobilizedCharacteristics_assnreflist} \alias{information_assnref} \alias{isApproximateLength} \alias{isBackground} \alias{isCircular} \alias{isSolvent} \alias{issue} \alias{kindCV} \alias{labeledExtract} \alias{labeledExtract_ref} \alias{labels_assnreflist} \alias{lastName} \alias{lowerRightX} \alias{lowerRightY} \alias{make} \alias{manufactureLIMS} \alias{manufactureLIMSBiomaterial} \alias{manufacturingDate} \alias{massUnit} \alias{materialType_assn} \alias{measuredBioAssay} \alias{measuredBioAssayData} \alias{measuredBioAssayData_assnreflist} \alias{measuredBioAssayData_ref} \alias{measuredBioAssay_ref} \alias{measuredSignal} \alias{measuredSignal_ref} \alias{measurement} \alias{measurement_assn} \alias{measurement_package} \alias{members_assnreflist} \alias{midInitials} \alias{mismatchInformation} \alias{mismatchInformation_assnlist} \alias{model} \alias{name} \alias{nameValueType} \alias{newSequence} \alias{node} \alias{nodeContents} \alias{nodeContents_assnlist} \alias{nodes_assnlist} \alias{nodeValue} \alias{nodeValue_assnlist} \alias{normalizationDescription_assn} \alias{numArrays} \alias{numberOfFeatures} \alias{numFeaturesPerCol} \alias{numFeaturesPerRow} \alias{ontologyEntries_assnlist} \alias{ontologyEntry} \alias{ontologyReference_assn} \alias{organization} \alias{organization_ref} \alias{orientationMark} \alias{orientationMarkPosition} \alias{originRelativeTo} \alias{otherKind} \alias{owner_assnreflist} \alias{pages} \alias{parameter} \alias{parameter_ref} \alias{parameters_assnlist} \alias{parameterType_assnref} \alias{parameterTypes_assnlist} \alias{parameterValue} \alias{parameterValues_assnlist} \alias{parent_assnref} \alias{performer_assnref} \alias{performers_assnreflist} \alias{person_ref} \alias{phone} \alias{physicalArrayDesign} \alias{physicalArrayDesign_ref} \alias{physicalBioAssay} \alias{physicalBioAssayData_assnlist} \alias{physicalBioAssay_ref} \alias{physicalBioAssaySource_assnref} \alias{polymerType_assn} \alias{position} \alias{position_assn} \alias{positionDelta} \alias{positionDelta_assn} \alias{presentAbsent} \alias{presentAbsent_ref} \alias{producerTransformation_assn} \alias{propertySets_assnlist} \alias{protocol} \alias{protocolApplication} \alias{protocolApplications_assnlist} \alias{protocol_assnlist} \alias{protocol_assnref} \alias{protocol_package} \alias{protocol_ref} \alias{providers_assnreflist} \alias{publication} \alias{publisher} \alias{pvalue} \alias{pvalue_ref} \alias{quality} \alias{qualityControlDescription_assn} \alias{qualityControlStatistics_assnlist} \alias{quantitationDimension_assnref} \alias{quantitationType_assnlist} \alias{quantitationType_assnref} \alias{quantitationTypeDimension} \alias{quantitationTypeDimension_assnlist} \alias{quantitationTypeDimension_assnref} \alias{quantitationTypeDimension_ref} \alias{quantitationTypeMap} \alias{quantitationTypeMap_assnlist} \alias{quantitationTypeMapping} \alias{quantitationTypeMapping_assn} \alias{quantitationTypeMap_ref} \alias{quantitationTypeMaps_assnreflist} \alias{quantitationType_package} \alias{quantitationTypes_assnreflist} \alias{quantitationTypeTuple} \alias{quantitationTypeTuples_assnlist} \alias{quantityUnit} \alias{ratio} \alias{ratio_ref} \alias{regions_assnlist} \alias{releaseDate} \alias{replacedLength} \alias{replicateDescription_assn} \alias{reporter} \alias{reporter_assnlist} \alias{reporter_assnref} \alias{reporterCompositeMap} \alias{reporterCompositeMap_assnlist} \alias{reporterCompositeMap_ref} \alias{reporterCompositeMaps_assnreflist} \alias{reporterDimension} \alias{reporterDimension_ref} \alias{reporterGroup} \alias{reporterGroup_assnlist} \alias{reporterGroup_ref} \alias{reporterGroups_assnreflist} \alias{reporterPosition} \alias{reporterPositionSources_assnlist} \alias{reporter_ref} \alias{reporters_assnreflist} \alias{roles_assnlist} \alias{scale_assn} \alias{security} \alias{security_assnlist} \alias{security_assnref} \alias{securityGroup} \alias{securityGroup_assnlist} \alias{securityGroup_ref} \alias{securityGroups_assnreflist} \alias{security_ref} \alias{seqFeature} \alias{seqFeatureLocation} \alias{seqFeatures_assnlist} \alias{sequenceDatabases_assnlist} \alias{sequencePosition} \alias{serialNumber} \alias{software} \alias{softwareApplication} \alias{softwareApplications_assnlist} \alias{software_assnlist} \alias{software_assnref} \alias{softwareManufacturers_assnreflist} \alias{software_ref} \alias{softwares_assnreflist} \alias{sourceBioAssays_assnreflist} \alias{sourceBioMaterialMeasurements_assnlist} \alias{sourceContact_assnreflist} \alias{sourcesQuantitationType_assnreflist} \alias{spacingBetweenCols} \alias{spacingBetweenRows} \alias{spacingsBetweenZonesX} \alias{spacingsBetweenZonesY} \alias{specializedQuantitationType} \alias{specializedQuantitationType_ref} \alias{species_assn} \alias{startCoord} \alias{strandType} \alias{subregions_assnlist} \alias{substrateType_assn} \alias{summaryStatistics_assnlist} \alias{surfaceType_assn} \alias{target_assnref} \alias{targetQuantitationType_assnref} \alias{technologyType_assn} \alias{temperatureUnit} \alias{timeUnit} \alias{tolerance} \alias{tollFreePhone} \alias{topLevelBioAssays_assnreflist} \alias{transformation} \alias{treatment} \alias{treatments_assnlist} \alias{type} \alias{type_assn} \alias{types_assnlist} \alias{unit_assn} \alias{unitName} \alias{unitNameCV} \alias{upperLeftX} \alias{upperLeftY} \alias{uri} \alias{value_assn} \alias{volume} \alias{volumeUnit} \alias{warningType_assn} \alias{width} \alias{x} \alias{y} \alias{year} \alias{zone} \alias{zone_assnref} \alias{zoneDefect} \alias{zoneGroup} \alias{zoneGroups_assnlist} \alias{zoneLayout} \alias{zoneLayout_assn} \alias{zoneLocations_assnlist} \alias{zone_ref} \alias{zonesPerX} \alias{zonesPerY} % accessor methods \alias{accession,DatabaseEntry-method} \alias{accessions_assnlist,BibliographicReference-method} \alias{accessionVersion,DatabaseEntry-method} \alias{action,Audit-method} \alias{action_assn,Treatment-method} \alias{actionMeasurement_assn,Treatment-method} \alias{activityDate,ProtocolApplication-method} \alias{address,Organization-method} \alias{address,Person-method} \alias{adjustments_assnlist,ArrayManufactureDeviation-method} \alias{affiliation_assnref,Person-method} \alias{affxArray,Array_assnlist-method} \alias{affxCategory,OntologyEntry-method} \alias{affxDate,Audit-method} \alias{affxEnd,CompositePosition-method} \alias{affxEnd,ReporterPosition-method} \alias{affxEnd,SequencePosition-method} \alias{affxImage,PhysicalBioAssayData_assnlist-method} \alias{affxOrder,BioDataCube-method} \alias{affxOrder,Treatment-method} \alias{affxPerson,Contact_assnlist-method} \alias{affxPerson,Person_assnlist-method} \alias{affxRow,FeatureLocation-method} \alias{affxRow,Zone-method} \alias{affxSequence,BioSequence-method} \alias{affxStart,CompositePosition-method} \alias{affxStart,ReporterPosition-method} \alias{affxStart,SequencePosition-method} \alias{affxText,Description-method} \alias{affxText,Protocol-method} \alias{affxTitle,BibliographicReference-method} \alias{affxTitle,Protocol-method} \alias{analysisResults_assnreflist,Experiment-method} \alias{annotations_assnlist,Description-method} \alias{annotations_assnlist,ExperimentalFactor-method} \alias{array_assnlist,Array_package-method} \alias{array_assnref,BioAssayCreation-method} \alias{array_assnref,Hybridization-method} \alias{arrayDesign,ArrayDesign_assnlist-method} \alias{arrayDesign_assnlist,ArrayDesign_package-method} \alias{arrayDesign_assnref,Array-method} \alias{arrayDesign_package,MAGE-ML-method} \alias{arrayDesign_ref,ArrayDesign_assnref-method} \alias{arrayGroup,ArrayGroup_assnlist-method} \alias{arrayGroup_assnlist,Array_package-method} \alias{arrayGroup_assnref,Array-method} \alias{arrayGroup_ref,ArrayGroup_assnref-method} \alias{arrayIdentifier,Array-method} \alias{arrayManufacture,ArrayManufacture_assnlist-method} \alias{arrayManufacture_assnlist,Array_package-method} \alias{arrayManufactureDeviation,ArrayManufactureDeviations_assnlist-method} \alias{arrayManufactureDeviations_assnlist,Array-method} \alias{arrayManufacture_ref,Information_assnref-method} \alias{arrayManufacturers_assnreflist,ArrayManufacture-method} \alias{array_package,MAGE-ML-method} \alias{array_ref,Array_assnref-method} \alias{array_ref,Arrays_assnreflist-method} \alias{arrays_assnreflist,ArrayGroup-method} \alias{arrays_assnreflist,ArrayManufacture-method} \alias{arraySpacingX,ArrayGroup-method} \alias{arraySpacingY,ArrayGroup-method} \alias{arrayXOrigin,Array-method} \alias{arrayYOrigin,Array-method} \alias{associations_assnlist,OntologyEntry-method} \alias{audit,AuditTrail_assnlist-method} \alias{auditAndSecurity_package,MAGE-ML-method} \alias{auditTrail_assnlist,Array-method} \alias{auditTrail_assnlist,ArrayDesign-method} \alias{auditTrail_assnlist,ArrayGroup-method} \alias{auditTrail_assnlist,ArrayManufacture-method} \alias{auditTrail_assnlist,Audit-method} \alias{auditTrail_assnlist,BibliographicReference-method} \alias{auditTrail_assnlist,BioAssayCreation-method} \alias{auditTrail_assnlist,BioAssayDataCluster-method} \alias{auditTrail_assnlist,BioAssayDimension-method} \alias{auditTrail_assnlist,BioAssayMap-method} \alias{auditTrail_assnlist,BioAssayTreatment-method} \alias{auditTrail_assnlist,BioSample-method} \alias{auditTrail_assnlist,BioSequence-method} \alias{auditTrail_assnlist,BioSource-method} \alias{auditTrail_assnlist,Channel-method} \alias{auditTrail_assnlist,CompositeCompositeMap-method} \alias{auditTrail_assnlist,CompositeGroup-method} \alias{auditTrail_assnlist,CompositeSequence-method} \alias{auditTrail_assnlist,CompositeSequenceDimension-method} \alias{auditTrail_assnlist,Compound-method} \alias{auditTrail_assnlist,Database-method} \alias{auditTrail_assnlist,DerivedBioAssay-method} \alias{auditTrail_assnlist,DerivedBioAssayData-method} \alias{auditTrail_assnlist,DerivedSignal-method} \alias{auditTrail_assnlist,Description-method} \alias{auditTrail_assnlist,Error-method} \alias{auditTrail_assnlist,ExpectedValue-method} \alias{auditTrail_assnlist,Experiment-method} \alias{auditTrail_assnlist,ExperimentalFactor-method} \alias{auditTrail_assnlist,ExperimentDesign-method} \alias{auditTrail_assnlist,FactorValue-method} \alias{auditTrail_assnlist,Failed-method} \alias{auditTrail_assnlist,Feature-method} \alias{auditTrail_assnlist,FeatureDimension-method} \alias{auditTrail_assnlist,FeatureExtraction-method} \alias{auditTrail_assnlist,FeatureGroup-method} \alias{auditTrail_assnlist,FeatureReporterMap-method} \alias{auditTrail_assnlist,Fiducial-method} \alias{auditTrail_assnlist,Hardware-method} \alias{auditTrail_assnlist,HardwareApplication-method} \alias{auditTrail_assnlist,Hybridization-method} \alias{auditTrail_assnlist,Image-method} \alias{auditTrail_assnlist,ImageAcquisition-method} \alias{auditTrail_assnlist,LabeledExtract-method} \alias{auditTrail_assnlist,MAGE-ML-method} \alias{auditTrail_assnlist,ManufactureLIMS-method} \alias{auditTrail_assnlist,ManufactureLIMSBiomaterial-method} \alias{auditTrail_assnlist,MeasuredBioAssay-method} \alias{auditTrail_assnlist,MeasuredBioAssayData-method} \alias{auditTrail_assnlist,MeasuredSignal-method} \alias{auditTrail_assnlist,Node-method} \alias{auditTrail_assnlist,NodeContents-method} \alias{auditTrail_assnlist,Organization-method} \alias{auditTrail_assnlist,Parameter-method} \alias{auditTrail_assnlist,Person-method} \alias{auditTrail_assnlist,PhysicalArrayDesign-method} \alias{auditTrail_assnlist,PhysicalBioAssay-method} \alias{auditTrail_assnlist,PresentAbsent-method} \alias{auditTrail_assnlist,Protocol-method} \alias{auditTrail_assnlist,ProtocolApplication-method} \alias{auditTrail_assnlist,PValue-method} \alias{auditTrail_assnlist,QuantitationTypeDimension-method} \alias{auditTrail_assnlist,QuantitationTypeMap-method} \alias{auditTrail_assnlist,Ratio-method} \alias{auditTrail_assnlist,Reporter-method} \alias{auditTrail_assnlist,ReporterCompositeMap-method} \alias{auditTrail_assnlist,ReporterDimension-method} \alias{auditTrail_assnlist,ReporterGroup-method} \alias{auditTrail_assnlist,Security-method} \alias{auditTrail_assnlist,SecurityGroup-method} \alias{auditTrail_assnlist,SeqFeature-method} \alias{auditTrail_assnlist,Software-method} \alias{auditTrail_assnlist,SoftwareApplication-method} \alias{auditTrail_assnlist,SpecializedQuantitationType-method} \alias{auditTrail_assnlist,Transformation-method} \alias{auditTrail_assnlist,Treatment-method} \alias{auditTrail_assnlist,Zone-method} \alias{authors,BibliographicReference-method} \alias{barcode,ArrayGroup-method} \alias{basis,SeqFeature-method} \alias{bibliographicReference,BibliographicReferences_assnlist-method} \alias{bibliographicReferences_assnlist,Description-method} \alias{bioAssay_assnlist,BioAssay_package-method} \alias{bioAssay_assnref,BioAssayTuple-method} \alias{bioAssayCreation,BioAssayCreation_assn-method} \alias{bioAssayCreation_assn,PhysicalBioAssay-method} \alias{bioAssayData_assnlist,BioAssayData_package-method} \alias{bioAssayData_assnreflist,Experiment-method} \alias{bioAssayDataCluster,BioAssayDataCluster_assnlist-method} \alias{bioAssayDataCluster_assnlist,HigherLevelAnalysis_package-method} \alias{bioAssayDataCluster_ref,AnalysisResults_assnreflist-method} \alias{bioAssayData_package,MAGE-ML-method} \alias{bioAssayDataSources_assnreflist,Transformation-method} \alias{bioAssayDimension,BioAssayDimension_assnlist-method} \alias{bioAssayDimension_assnlist,BioAssayData_package-method} \alias{bioAssayDimension_assnref,DerivedBioAssayData-method} \alias{bioAssayDimension_assnref,MeasuredBioAssayData-method} \alias{bioAssayDimension_assnref,NodeContents-method} \alias{bioAssayDimension_ref,BioAssayDimension_assnref-method} \alias{bioAssayFactorValues_assnreflist,DerivedBioAssay-method} \alias{bioAssayFactorValues_assnreflist,MeasuredBioAssay-method} \alias{bioAssayFactorValues_assnreflist,PhysicalBioAssay-method} \alias{bioAssayMap,BioAssayMap_assnlist-method} \alias{bioAssayMap_assnlist,BioAssayData_package-method} \alias{bioAssayMapping,BioAssayMapping_assn-method} \alias{bioAssayMapping_assn,Transformation-method} \alias{bioAssayMap_ref,BioAssayMaps_assnreflist-method} \alias{bioAssayMap_ref,DerivedBioAssayMap_assnreflist-method} \alias{bioAssayMaps_assnreflist,BioAssayMapping-method} \alias{bioAssayMapTarget_assnref,BioAssayMap-method} \alias{bioAssay_package,MAGE-ML-method} \alias{bioAssays_assnreflist,BioAssayDimension-method} \alias{bioAssays_assnreflist,Experiment-method} \alias{bioAssayTreatment,BioAssayTreatments_assnlist-method} \alias{bioAssayTreatments_assnlist,PhysicalBioAssay-method} \alias{bioAssayTuple,BioAssayTuples_assnlist-method} \alias{bioAssayTuples_assnlist,BioDataTuples-method} \alias{bioDataCube,BioDataValues_assn-method} \alias{bioDataTuples,BioDataValues_assn-method} \alias{bioDataValues_assn,DerivedBioAssayData-method} \alias{bioDataValues_assn,MeasuredBioAssayData-method} \alias{bioEvent_package,MAGE-ML-method} \alias{biologicalCharacteristics_assnreflist,CompositeSequence-method} \alias{bioMaterial_assnlist,BioMaterial_package-method} \alias{bioMaterial_assnref,BioMaterialMeasurement-method} \alias{bioMaterial_assnref,ManufactureLIMS-method} \alias{bioMaterial_assnref,ManufactureLIMSBiomaterial-method} \alias{bioMaterialMeasurement,SourceBioMaterialMeasurements_assnlist-method} \alias{bioMaterial_package,MAGE-ML-method} \alias{bioMaterialPlateCol,ManufactureLIMSBiomaterial-method} \alias{bioMaterialPlateIdentifier,ManufactureLIMSBiomaterial-method} \alias{bioMaterialPlateRow,ManufactureLIMSBiomaterial-method} \alias{bioSample,BioMaterial_assnlist-method} \alias{bioSample_ref,BioMaterial_assnref-method} \alias{bioSequence,BioSequence_assnlist-method} \alias{bioSequence_assnlist,BioSequence_package-method} \alias{bioSequence_package,MAGE-ML-method} \alias{bioSequence_ref,BiologicalCharacteristics_assnreflist-method} \alias{bioSequence_ref,ImmobilizedCharacteristics_assnreflist-method} \alias{bioSource,BioMaterial_assnlist-method} \alias{bioSource_ref,BioMaterial_assnref-method} \alias{bqs_package,MAGE-ML-method} \alias{category_assn,ExperimentalFactor-method} \alias{channel,Channel_assnlist-method} \alias{channel_assnlist,BioAssay_package-method} \alias{channel_assnref,DerivedSignal-method} \alias{channel_assnref,Error-method} \alias{channel_assnref,ExpectedValue-method} \alias{channel_assnref,Failed-method} \alias{channel_assnref,MeasuredSignal-method} \alias{channel_assnref,PresentAbsent-method} \alias{channel_assnref,PValue-method} \alias{channel_assnref,Ratio-method} \alias{channel_assnref,SpecializedQuantitationType-method} \alias{channel_ref,Channel_assnref-method} \alias{channel_ref,Channels_assnreflist-method} \alias{channels_assnreflist,DerivedBioAssay-method} \alias{channels_assnreflist,Image-method} \alias{channels_assnreflist,MeasuredBioAssay-method} \alias{channels_assnreflist,PhysicalBioAssay-method} \alias{characteristics_assnlist,BioSample-method} \alias{characteristics_assnlist,BioSource-method} \alias{characteristics_assnlist,LabeledExtract-method} \alias{clusterBioAssayData_assnref,BioAssayDataCluster-method} \alias{column,FeatureLocation-method} \alias{column,Zone-method} \alias{componentCompounds_assnlist,Compound-method} \alias{composite_assnref,CompositePosition-method} \alias{compositeCompositeMap,CompositeCompositeMap_assnlist-method} \alias{compositeCompositeMap,DesignElementMap_assnlist-method} \alias{compositeCompositeMap_assnlist,DesignElement_package-method} \alias{compositeCompositeMap_ref,CompositeCompositeMaps_assnreflist-method} \alias{compositeCompositeMap_ref,DesignElementMaps_assnreflist-method} \alias{compositeCompositeMaps_assnreflist,CompositeSequence-method} \alias{compositeGroup,CompositeGroup_assnlist-method} \alias{compositeGroup_assnlist,ArrayDesign_package-method} \alias{compositeGroup_ref,CompositeGroups_assnreflist-method} \alias{compositeGroups_assnreflist,ArrayDesign-method} \alias{compositeGroups_assnreflist,PhysicalArrayDesign-method} \alias{compositePosition,CompositePositionSources_assnlist-method} \alias{compositePosition,Coordinate_assn-method} \alias{compositePositionSources_assnlist,CompositeCompositeMap-method} \alias{compositeSequence,CompositeSequence_assnlist-method} \alias{compositeSequence,DesignElement_assnlist-method} \alias{compositeSequence_assnlist,DesignElement_package-method} \alias{compositeSequence_assnref,CompositeCompositeMap-method} \alias{compositeSequence_assnref,ReporterCompositeMap-method} \alias{compositeSequenceDimension,DesignElementDimension_assnlist-method} \alias{compositeSequenceDimension_ref,DesignElementDimension_assnref-method} \alias{compositeSequence_ref,Composite_assnref-method} \alias{compositeSequence_ref,CompositeSequence_assnref-method} \alias{compositeSequence_ref,CompositeSequences_assnreflist-method} \alias{compositeSequence_ref,DesignElement_assnref-method} \alias{compositeSequences_assnreflist,CompositeGroup-method} \alias{compositeSequences_assnreflist,CompositeSequenceDimension-method} \alias{compound,Compound_assnlist-method} \alias{compound_assnlist,BioMaterial_package-method} \alias{compound_assnref,CompoundMeasurement-method} \alias{compoundIndices_assnlist,Compound-method} \alias{compoundMeasurement,ComponentCompounds_assnlist-method} \alias{compoundMeasurement,CompoundMeasurements_assnlist-method} \alias{compoundMeasurements_assnlist,Treatment-method} \alias{compound_ref,Compound_assnref-method} \alias{compound_ref,Labels_assnreflist-method} \alias{concentrationUnit,Unit_assn-method} \alias{confidenceIndicators_assnreflist,DerivedSignal-method} \alias{confidenceIndicators_assnreflist,Error-method} \alias{confidenceIndicators_assnreflist,ExpectedValue-method} \alias{confidenceIndicators_assnreflist,Failed-method} \alias{confidenceIndicators_assnreflist,MeasuredSignal-method} \alias{confidenceIndicators_assnreflist,PresentAbsent-method} \alias{confidenceIndicators_assnreflist,PValue-method} \alias{confidenceIndicators_assnreflist,Ratio-method} \alias{confidenceIndicators_assnreflist,SpecializedQuantitationType-method} \alias{contact_assnlist,AuditAndSecurity_package-method} \alias{contacts_assnreflist,Database-method} \alias{containedFeatures_assnreflist,FeatureDimension-method} \alias{controlFeatures_assnreflist,Feature-method} \alias{controlledFeatures_assnreflist,Feature-method} \alias{controlType_assn,CompositeSequence-method} \alias{controlType_assn,Feature-method} \alias{controlType_assn,Reporter-method} \alias{coordinate_assn,SeqFeatureLocation-method} \alias{database,Database_assnlist-method} \alias{database_assnlist,Description_package-method} \alias{database_assnref,DatabaseEntry-method} \alias{databaseEntry,Accessions_assnlist-method} \alias{databaseEntry,DatabaseReferences_assnlist-method} \alias{databaseEntry,ExternalLIMS_assn-method} \alias{databaseEntry,IdentifierLIMS_assn-method} \alias{databaseEntry,OntologyReference_assn-method} \alias{databaseEntry,SequenceDatabases_assnlist-method} \alias{database_ref,Database_assnref-method} \alias{databaseReferences_assnlist,Description-method} \alias{dataExternal,DataExternal_assn-method} \alias{dataExternal_assn,BioDataCube-method} \alias{dataFormat,DataExternal-method} \alias{dataFormatInfoURI,DataExternal-method} \alias{dataInternal,DataInternal_assn-method} \alias{dataInternal_assn,BioDataCube-method} \alias{dataType_assn,DerivedSignal-method} \alias{dataType_assn,Error-method} \alias{dataType_assn,ExpectedValue-method} \alias{dataType_assn,Failed-method} \alias{dataType_assn,MeasuredSignal-method} \alias{dataType_assn,NodeValue-method} \alias{dataType_assn,Parameter-method} \alias{dataType_assn,PresentAbsent-method} \alias{dataType_assn,PValue-method} \alias{dataType_assn,Ratio-method} \alias{dataType_assn,SpecializedQuantitationType-method} \alias{datum,Datum_assn-method} \alias{datum_assn,QuantitationTypeTuple-method} \alias{defaultValue_assn,Parameter-method} \alias{defectType_assn,FeatureDefect-method} \alias{defectType_assn,ZoneDefect-method} \alias{deltaX,PositionDelta-method} \alias{deltaY,PositionDelta-method} \alias{derivedBioAssay,BioAssay_assnlist-method} \alias{derivedBioAssay,DerivedBioAssay_assnlist-method} \alias{derivedBioAssayData,BioAssayData_assnlist-method} \alias{derivedBioAssayData,DerivedBioAssayData_assnlist-method} \alias{derivedBioAssayData_assnreflist,DerivedBioAssay-method} \alias{derivedBioAssayData_ref,BioAssayData_assnreflist-method} \alias{derivedBioAssayData_ref,BioAssayDataSources_assnreflist-method} \alias{derivedBioAssayData_ref,ClusterBioAssayData_assnref-method} \alias{derivedBioAssayData_ref,DerivedBioAssayData_assnreflist-method} \alias{derivedBioAssayData_ref,DerivedBioAssayDataTarget_assnref-method} \alias{derivedBioAssayMap_assnreflist,DerivedBioAssay-method} \alias{derivedBioAssay_ref,BioAssay_assnref-method} \alias{derivedBioAssay_ref,BioAssayMapTarget_assnref-method} \alias{derivedBioAssay_ref,BioAssays_assnreflist-method} \alias{derivedBioAssay_ref,SourceBioAssays_assnreflist-method} \alias{derivedBioAssay_ref,TopLevelBioAssays_assnreflist-method} \alias{derivedSignal,QuantitationType_assnlist-method} \alias{derivedSignal_ref,QuantitationType_assnref-method} \alias{derivedSignal_ref,QuantitationTypes_assnreflist-method} \alias{derivedSignal_ref,SourcesQuantitationType_assnreflist-method} \alias{derivedSignal_ref,TargetQuantitationType_assnref-method} \alias{description,Descriptions_assnlist-method} \alias{description,NormalizationDescription_assn-method} \alias{description,OntologyEntry-method} \alias{description,QualityControlDescription_assn-method} \alias{description,ReplicateDescription_assn-method} \alias{description_package,MAGE-ML-method} \alias{descriptions_assnlist,Array-method} \alias{descriptions_assnlist,ArrayDesign-method} \alias{descriptions_assnlist,ArrayGroup-method} \alias{descriptions_assnlist,ArrayManufacture-method} \alias{descriptions_assnlist,Audit-method} \alias{descriptions_assnlist,BibliographicReference-method} \alias{descriptions_assnlist,BioAssayCreation-method} \alias{descriptions_assnlist,BioAssayDataCluster-method} \alias{descriptions_assnlist,BioAssayDimension-method} \alias{descriptions_assnlist,BioAssayMap-method} \alias{descriptions_assnlist,BioAssayTreatment-method} \alias{descriptions_assnlist,BioSample-method} \alias{descriptions_assnlist,BioSequence-method} \alias{descriptions_assnlist,BioSource-method} \alias{descriptions_assnlist,Channel-method} \alias{descriptions_assnlist,CompositeCompositeMap-method} \alias{descriptions_assnlist,CompositeGroup-method} \alias{descriptions_assnlist,CompositeSequence-method} \alias{descriptions_assnlist,CompositeSequenceDimension-method} \alias{descriptions_assnlist,Compound-method} \alias{descriptions_assnlist,Database-method} \alias{descriptions_assnlist,DerivedBioAssay-method} \alias{descriptions_assnlist,DerivedBioAssayData-method} \alias{descriptions_assnlist,DerivedSignal-method} \alias{descriptions_assnlist,Description-method} \alias{descriptions_assnlist,Error-method} \alias{descriptions_assnlist,ExpectedValue-method} \alias{descriptions_assnlist,Experiment-method} \alias{descriptions_assnlist,ExperimentalFactor-method} \alias{descriptions_assnlist,ExperimentDesign-method} \alias{descriptions_assnlist,FactorValue-method} \alias{descriptions_assnlist,Failed-method} \alias{descriptions_assnlist,Feature-method} \alias{descriptions_assnlist,FeatureDimension-method} \alias{descriptions_assnlist,FeatureExtraction-method} \alias{descriptions_assnlist,FeatureGroup-method} \alias{descriptions_assnlist,FeatureReporterMap-method} \alias{descriptions_assnlist,Fiducial-method} \alias{descriptions_assnlist,Hardware-method} \alias{descriptions_assnlist,HardwareApplication-method} \alias{descriptions_assnlist,Hybridization-method} \alias{descriptions_assnlist,Image-method} \alias{descriptions_assnlist,ImageAcquisition-method} \alias{descriptions_assnlist,LabeledExtract-method} \alias{descriptions_assnlist,MAGE-ML-method} \alias{descriptions_assnlist,ManufactureLIMS-method} \alias{descriptions_assnlist,ManufactureLIMSBiomaterial-method} \alias{descriptions_assnlist,MeasuredBioAssay-method} \alias{descriptions_assnlist,MeasuredBioAssayData-method} \alias{descriptions_assnlist,MeasuredSignal-method} \alias{descriptions_assnlist,Node-method} \alias{descriptions_assnlist,NodeContents-method} \alias{descriptions_assnlist,Organization-method} \alias{descriptions_assnlist,Parameter-method} \alias{descriptions_assnlist,Person-method} \alias{descriptions_assnlist,PhysicalArrayDesign-method} \alias{descriptions_assnlist,PhysicalBioAssay-method} \alias{descriptions_assnlist,PresentAbsent-method} \alias{descriptions_assnlist,Protocol-method} \alias{descriptions_assnlist,ProtocolApplication-method} \alias{descriptions_assnlist,PValue-method} \alias{descriptions_assnlist,QuantitationTypeDimension-method} \alias{descriptions_assnlist,QuantitationTypeMap-method} \alias{descriptions_assnlist,Ratio-method} \alias{descriptions_assnlist,Reporter-method} \alias{descriptions_assnlist,ReporterCompositeMap-method} \alias{descriptions_assnlist,ReporterDimension-method} \alias{descriptions_assnlist,ReporterGroup-method} \alias{descriptions_assnlist,Security-method} \alias{descriptions_assnlist,SecurityGroup-method} \alias{descriptions_assnlist,SeqFeature-method} \alias{descriptions_assnlist,Software-method} \alias{descriptions_assnlist,SoftwareApplication-method} \alias{descriptions_assnlist,SpecializedQuantitationType-method} \alias{descriptions_assnlist,Transformation-method} \alias{descriptions_assnlist,Treatment-method} \alias{descriptions_assnlist,Zone-method} \alias{designElement_assnref,DesignElementTuple-method} \alias{designElementDimension_assnlist,BioAssayData_package-method} \alias{designElementDimension_assnref,DerivedBioAssayData-method} \alias{designElementDimension_assnref,MeasuredBioAssayData-method} \alias{designElementDimension_assnref,NodeContents-method} \alias{designElementMapping,DesignElementMapping_assn-method} \alias{designElementMapping_assn,Transformation-method} \alias{designElementMaps_assnreflist,DesignElementMapping-method} \alias{designElement_package,MAGE-ML-method} \alias{designElementTuple,DesignElementTuples_assnlist-method} \alias{designElementTuples_assnlist,BioAssayTuple-method} \alias{designProviders_assnreflist,ArrayDesign-method} \alias{designProviders_assnreflist,PhysicalArrayDesign-method} \alias{distanceUnit,DistanceUnit_assn-method} \alias{distanceUnit,Unit_assn-method} \alias{distanceUnit_assn,ArrayGroup-method} \alias{distanceUnit_assn,FeatureGroup-method} \alias{distanceUnit_assn,Fiducial-method} \alias{distanceUnit_assn,Position-method} \alias{distanceUnit_assn,PositionDelta-method} \alias{distanceUnit_assn,Zone-method} \alias{distanceUnit_assn,ZoneGroup-method} \alias{distanceUnit_assn,ZoneLayout-method} \alias{editor,BibliographicReference-method} \alias{email,Organization-method} \alias{email,Person-method} \alias{error,ConfidenceIndicator_assnlist-method} \alias{error,QuantitationType_assnlist-method} \alias{error_ref,ConfidenceIndicators_assnreflist-method} \alias{error_ref,QuantitationType_assnref-method} \alias{error_ref,QuantitationTypes_assnreflist-method} \alias{error_ref,SourcesQuantitationType_assnreflist-method} \alias{error_ref,TargetQuantitationType_assnref-method} \alias{expectedValue,ConfidenceIndicator_assnlist-method} \alias{expectedValue,QuantitationType_assnlist-method} \alias{expectedValue_ref,ConfidenceIndicators_assnreflist-method} \alias{expectedValue_ref,QuantitationType_assnref-method} \alias{expectedValue_ref,QuantitationTypes_assnreflist-method} \alias{expectedValue_ref,SourcesQuantitationType_assnreflist-method} \alias{expectedValue_ref,TargetQuantitationType_assnref-method} \alias{experiment,Experiment_assnlist-method} \alias{experimentalFactor,ExperimentalFactors_assnlist-method} \alias{experimentalFactor_ref,ExperimentalFactor_assnref-method} \alias{experimentalFactors_assnlist,ExperimentDesign-method} \alias{experiment_assnlist,Experiment_package-method} \alias{experimentDesign,ExperimentDesigns_assnlist-method} \alias{experimentDesigns_assnlist,Experiment-method} \alias{experiment_package,MAGE-ML-method} \alias{exportedFromDB,ExternalReference-method} \alias{exportedFromServer,ExternalReference-method} \alias{exportID,ExternalReference-method} \alias{exportName,ExternalReference-method} \alias{externalLIMS_assn,Compound-method} \alias{externalReference,ExternalReference_assn-method} \alias{externalReference_assn,Description-method} \alias{factorValue,FactorValues_assnlist-method} \alias{factorValue_ref,BioAssayFactorValues_assnreflist-method} \alias{factorValues_assnlist,ExperimentalFactor-method} \alias{failed,QuantitationType_assnlist-method} \alias{failed_ref,QuantitationType_assnref-method} \alias{failed_ref,QuantitationTypes_assnreflist-method} \alias{failed_ref,SourcesQuantitationType_assnreflist-method} \alias{failed_ref,TargetQuantitationType_assnref-method} \alias{failTypes_assnlist,Reporter-method} \alias{fax,Organization-method} \alias{fax,Person-method} \alias{feature,DesignElement_assnlist-method} \alias{feature,Features_assnlist-method} \alias{feature_assnref,FeatureDefect-method} \alias{feature_assnref,FeatureInformation-method} \alias{feature_assnref,ManufactureLIMS-method} \alias{feature_assnref,ManufactureLIMSBiomaterial-method} \alias{featureDefect,FeatureDefects_assnlist-method} \alias{featureDefects_assnlist,ArrayManufactureDeviation-method} \alias{featureDimension,DesignElementDimension_assnlist-method} \alias{featureDimension_ref,DesignElementDimension_assnref-method} \alias{featureExtraction,FeatureExtraction_assn-method} \alias{featureExtraction_assn,MeasuredBioAssay-method} \alias{featureGroup,FeatureGroups_assnlist-method} \alias{featureGroup_ref,FeatureGroup_assnref-method} \alias{featureGroups_assnlist,ArrayDesign-method} \alias{featureGroups_assnlist,PhysicalArrayDesign-method} \alias{featureHeight,FeatureGroup-method} \alias{featureInformation,FeatureInformationSources_assnlist-method} \alias{featureInformationSources_assnlist,FeatureReporterMap-method} \alias{featureLength,FeatureGroup-method} \alias{featureLIMSs_assnlist,ArrayManufacture-method} \alias{featureLocation,FeatureLocation_assn-method} \alias{featureLocation_assn,Feature-method} \alias{feature_ref,ContainedFeatures_assnreflist-method} \alias{feature_ref,ControlFeatures_assnreflist-method} \alias{feature_ref,ControlledFeatures_assnreflist-method} \alias{feature_ref,DesignElement_assnref-method} \alias{feature_ref,Feature_assnref-method} \alias{featureReporterMap,DesignElementMap_assnlist-method} \alias{featureReporterMap,FeatureReporterMap_assnlist-method} \alias{featureReporterMap_assnlist,DesignElement_package-method} \alias{featureReporterMap_ref,DesignElementMaps_assnreflist-method} \alias{featureReporterMap_ref,FeatureReporterMaps_assnreflist-method} \alias{featureReporterMaps_assnreflist,Reporter-method} \alias{features_assnlist,FeatureGroup-method} \alias{featureShape_assn,FeatureGroup-method} \alias{featureWidth,FeatureGroup-method} \alias{fiducial,Fiducials_assnlist-method} \alias{fiducials_assnlist,ArrayGroup-method} \alias{fiducialType_assn,Fiducial-method} \alias{filenameURI,DataExternal-method} \alias{firstName,Person-method} \alias{format_assn,Image-method} \alias{hardware,Hardware_assnlist-method} \alias{hardwareApplication,HardwareApplications_assnlist-method} \alias{hardwareApplications_assnlist,ProtocolApplication-method} \alias{hardware_assnlist,Protocol_package-method} \alias{hardware_assnref,HardwareApplication-method} \alias{hardware_assnref,Software-method} \alias{hardwareManufacturers_assnreflist,Hardware-method} \alias{hardware_ref,Hardware_assnref-method} \alias{hardware_ref,Hardwares_assnreflist-method} \alias{hardwares_assnreflist,Protocol-method} \alias{higherLevelAnalysis_package,MAGE-ML-method} \alias{hybridization,BioAssayCreation_assn-method} \alias{identifier,Array-method} \alias{identifier,ArrayDesign-method} \alias{identifier,ArrayDesign_ref-method} \alias{identifier,ArrayGroup-method} \alias{identifier,ArrayGroup_ref-method} \alias{identifier,ArrayManufacture-method} \alias{identifier,ArrayManufacture_ref-method} \alias{identifier,Array_ref-method} \alias{identifier,BioAssayCreation-method} \alias{identifier,BioAssayDataCluster-method} \alias{identifier,BioAssayDataCluster_ref-method} \alias{identifier,BioAssayData_ref-method} \alias{identifier,BioAssayDimension-method} \alias{identifier,BioAssayDimension_ref-method} \alias{identifier,BioAssayMap-method} \alias{identifier,BioAssayMap_ref-method} \alias{identifier,BioAssay_ref-method} \alias{identifier,BioAssayTreatment-method} \alias{identifier,BioMaterial_ref-method} \alias{identifier,BioSample-method} \alias{identifier,BioSample_ref-method} \alias{identifier,BioSequence-method} \alias{identifier,BioSequence_ref-method} \alias{identifier,BioSource-method} \alias{identifier,BioSource_ref-method} \alias{identifier,Channel-method} \alias{identifier,Channel_ref-method} \alias{identifier,CompositeCompositeMap-method} \alias{identifier,CompositeCompositeMap_ref-method} \alias{identifier,CompositeGroup-method} \alias{identifier,CompositeGroup_ref-method} \alias{identifier,CompositeSequence-method} \alias{identifier,CompositeSequenceDimension-method} \alias{identifier,CompositeSequenceDimension_ref-method} \alias{identifier,CompositeSequence_ref-method} \alias{identifier,Compound-method} \alias{identifier,Compound_ref-method} \alias{identifier,ConfidenceIndicator_ref-method} \alias{identifier,Contact_ref-method} \alias{identifier,Database-method} \alias{identifier,Database_ref-method} \alias{identifier,DerivedBioAssay-method} \alias{identifier,DerivedBioAssayData-method} \alias{identifier,DerivedBioAssayData_ref-method} \alias{identifier,DerivedBioAssay_ref-method} \alias{identifier,DerivedSignal-method} \alias{identifier,DerivedSignal_ref-method} \alias{identifier,DesignElementDimension_ref-method} \alias{identifier,DesignElementMap_ref-method} \alias{identifier,DesignElement_ref-method} \alias{identifier,Error-method} \alias{identifier,Error_ref-method} \alias{identifier,ExpectedValue-method} \alias{identifier,ExpectedValue_ref-method} \alias{identifier,Experiment-method} \alias{identifier,ExperimentalFactor-method} \alias{identifier,ExperimentalFactor_ref-method} \alias{identifier,FactorValue-method} \alias{identifier,FactorValue_ref-method} \alias{identifier,Failed-method} \alias{identifier,Failed_ref-method} \alias{identifier,Feature-method} \alias{identifier,FeatureDimension-method} \alias{identifier,FeatureDimension_ref-method} \alias{identifier,FeatureExtraction-method} \alias{identifier,FeatureGroup-method} \alias{identifier,FeatureGroup_ref-method} \alias{identifier,Feature_ref-method} \alias{identifier,FeatureReporterMap-method} \alias{identifier,FeatureReporterMap_ref-method} \alias{identifier,Hardware-method} \alias{identifier,Hardware_ref-method} \alias{identifier,Hybridization-method} \alias{identifier,Image-method} \alias{identifier,ImageAcquisition-method} \alias{identifier,Image_ref-method} \alias{identifier,LabeledExtract-method} \alias{identifier,LabeledExtract_ref-method} \alias{identifier,MAGE-ML-method} \alias{identifier,MeasuredBioAssay-method} \alias{identifier,MeasuredBioAssayData-method} \alias{identifier,MeasuredBioAssayData_ref-method} \alias{identifier,MeasuredBioAssay_ref-method} \alias{identifier,MeasuredSignal-method} \alias{identifier,MeasuredSignal_ref-method} \alias{identifier,Organization-method} \alias{identifier,Organization_ref-method} \alias{identifier,Parameter-method} \alias{identifier,Parameter_ref-method} \alias{identifier,Person-method} \alias{identifier,Person_ref-method} \alias{identifier,PhysicalArrayDesign-method} \alias{identifier,PhysicalArrayDesign_ref-method} \alias{identifier,PhysicalBioAssay-method} \alias{identifier,PhysicalBioAssay_ref-method} \alias{identifier,PresentAbsent-method} \alias{identifier,PresentAbsent_ref-method} \alias{identifier,Protocol-method} \alias{identifier,Protocol_ref-method} \alias{identifier,PValue-method} \alias{identifier,PValue_ref-method} \alias{identifier,QuantitationTypeDimension-method} \alias{identifier,QuantitationTypeDimension_ref-method} \alias{identifier,QuantitationTypeMap-method} \alias{identifier,QuantitationTypeMap_ref-method} \alias{identifier,QuantitationType_ref-method} \alias{identifier,Ratio-method} \alias{identifier,Ratio_ref-method} \alias{identifier,Reporter-method} \alias{identifier,ReporterCompositeMap-method} \alias{identifier,ReporterCompositeMap_ref-method} \alias{identifier,ReporterDimension-method} \alias{identifier,ReporterDimension_ref-method} \alias{identifier,ReporterGroup-method} \alias{identifier,ReporterGroup_ref-method} \alias{identifier,Reporter_ref-method} \alias{identifier,Security-method} \alias{identifier,SecurityGroup-method} \alias{identifier,SecurityGroup_ref-method} \alias{identifier,Security_ref-method} \alias{identifier,Software-method} \alias{identifier,Software_ref-method} \alias{identifier,SpecializedQuantitationType-method} \alias{identifier,SpecializedQuantitationType_ref-method} \alias{identifier,StandardQuantitationType_ref-method} \alias{identifier,Transformation-method} \alias{identifier,Treatment-method} \alias{identifier,Zone-method} \alias{identifier,Zone_ref-method} \alias{identifierLIMS_assn,ManufactureLIMS-method} \alias{identifierLIMS_assn,ManufactureLIMSBiomaterial-method} \alias{imageAcquisition,BioAssayTreatments_assnlist-method} \alias{image_ref,Images_assnreflist-method} \alias{images_assnreflist,ImageAcquisition-method} \alias{immobilizedCharacteristics_assnreflist,Reporter-method} \alias{information_assnref,Array-method} \alias{isApproximateLength,BioSequence-method} \alias{isBackground,DerivedSignal-method} \alias{isBackground,Error-method} \alias{isBackground,ExpectedValue-method} \alias{isBackground,Failed-method} \alias{isBackground,MeasuredSignal-method} \alias{isBackground,PresentAbsent-method} \alias{isBackground,PValue-method} \alias{isBackground,Ratio-method} \alias{isBackground,SpecializedQuantitationType-method} \alias{isCircular,BioSequence-method} \alias{isSolvent,Compound-method} \alias{issue,BibliographicReference-method} \alias{kindCV,Measurement-method} \alias{labeledExtract,BioMaterial_assnlist-method} \alias{labeledExtract_ref,BioMaterial_assnref-method} \alias{labels_assnreflist,Channel-method} \alias{labels_assnreflist,LabeledExtract-method} \alias{lastName,Person-method} \alias{length,ArrayGroup-method} \alias{length,BioSequence-method} \alias{lowerRightX,Zone-method} \alias{lowerRightY,Zone-method} \alias{make,Hardware-method} \alias{manufactureLIMS,FeatureLIMSs_assnlist-method} \alias{manufactureLIMSBiomaterial,FeatureLIMSs_assnlist-method} \alias{manufacturingDate,ArrayManufacture-method} \alias{massUnit,Unit_assn-method} \alias{materialType_assn,BioSample-method} \alias{materialType_assn,BioSource-method} \alias{materialType_assn,LabeledExtract-method} \alias{measuredBioAssay,BioAssay_assnlist-method} \alias{measuredBioAssay,MeasuredBioAssay_assnlist-method} \alias{measuredBioAssayData,BioAssayData_assnlist-method} \alias{measuredBioAssayData,MeasuredBioAssayData_assnlist-method} \alias{measuredBioAssayData_assnreflist,MeasuredBioAssay-method} \alias{measuredBioAssayData_ref,BioAssayData_assnreflist-method} \alias{measuredBioAssayData_ref,BioAssayDataSources_assnreflist-method} \alias{measuredBioAssayData_ref,ClusterBioAssayData_assnref-method} \alias{measuredBioAssayData_ref,MeasuredBioAssayData_assnreflist-method} \alias{measuredBioAssay_ref,BioAssay_assnref-method} \alias{measuredBioAssay_ref,BioAssays_assnreflist-method} \alias{measuredBioAssay_ref,MeasuredBioAssayTarget_assnref-method} \alias{measuredBioAssay_ref,SourceBioAssays_assnreflist-method} \alias{measuredBioAssay_ref,TopLevelBioAssays_assnreflist-method} \alias{measuredSignal,QuantitationType_assnlist-method} \alias{measuredSignal_ref,QuantitationType_assnref-method} \alias{measuredSignal_ref,QuantitationTypes_assnreflist-method} \alias{measuredSignal_ref,SourcesQuantitationType_assnreflist-method} \alias{measuredSignal_ref,TargetQuantitationType_assnref-method} \alias{measurement,ActionMeasurement_assn-method} \alias{measurement,DefaultValue_assn-method} \alias{measurement,Measurement_assn-method} \alias{measurement_assn,BioMaterialMeasurement-method} \alias{measurement_assn,CompoundMeasurement-method} \alias{measurement_assn,FactorValue-method} \alias{measurement_package,MAGE-ML-method} \alias{members_assnreflist,SecurityGroup-method} \alias{midInitials,Person-method} \alias{mismatchInformation,MismatchInformation_assnlist-method} \alias{mismatchInformation_assnlist,CompositePosition-method} \alias{mismatchInformation_assnlist,FeatureInformation-method} \alias{mismatchInformation_assnlist,ReporterPosition-method} \alias{model,Hardware-method} \alias{name,ArrayDesign-method} \alias{name,ArrayDesign_ref-method} \alias{name,ArrayGroup-method} \alias{name,ArrayGroup_ref-method} \alias{name,ArrayManufacture-method} \alias{name,ArrayManufacture_ref-method} \alias{name,Array-method} \alias{name,Array_ref-method} \alias{name,BioAssayCreation-method} \alias{name,BioAssayDataCluster-method} \alias{name,BioAssayDataCluster_ref-method} \alias{name,BioAssayData_ref-method} \alias{name,BioAssayDimension-method} \alias{name,BioAssayDimension_ref-method} \alias{name,BioAssayMap-method} \alias{name,BioAssayMap_ref-method} \alias{name,BioAssay_ref-method} \alias{name,BioAssayTreatment-method} \alias{name,BioMaterial_ref-method} \alias{name,BioSample-method} \alias{name,BioSample_ref-method} \alias{name,BioSequence-method} \alias{name,BioSequence_ref-method} \alias{name,BioSource-method} \alias{name,BioSource_ref-method} \alias{name,Channel-method} \alias{name,Channel_ref-method} \alias{name,CompositeCompositeMap-method} \alias{name,CompositeCompositeMap_ref-method} \alias{name,CompositeGroup-method} \alias{name,CompositeGroup_ref-method} \alias{name,CompositeSequence-method} \alias{name,CompositeSequenceDimension-method} \alias{name,CompositeSequenceDimension_ref-method} \alias{name,CompositeSequence_ref-method} \alias{name,Compound-method} \alias{name,Compound_ref-method} \alias{name,ConfidenceIndicator_ref-method} \alias{name,Contact_ref-method} \alias{name,Database-method} \alias{name,Database_ref-method} \alias{name,DerivedBioAssay-method} \alias{name,DerivedBioAssayData-method} \alias{name,DerivedBioAssayData_ref-method} \alias{name,DerivedBioAssay_ref-method} \alias{name,DerivedSignal-method} \alias{name,DerivedSignal_ref-method} \alias{name,DesignElementDimension_ref-method} \alias{name,DesignElementMap_ref-method} \alias{name,DesignElement_ref-method} \alias{name,Error-method} \alias{name,Error_ref-method} \alias{name,ExpectedValue-method} \alias{name,ExpectedValue_ref-method} \alias{name,Experiment-method} \alias{name,ExperimentalFactor-method} \alias{name,ExperimentalFactor_ref-method} \alias{name,FactorValue-method} \alias{name,FactorValue_ref-method} \alias{name,Failed-method} \alias{name,Failed_ref-method} \alias{name,Feature-method} \alias{name,FeatureDimension-method} \alias{name,FeatureDimension_ref-method} \alias{name,FeatureExtraction-method} \alias{name,FeatureGroup-method} \alias{name,FeatureGroup_ref-method} \alias{name,Feature_ref-method} \alias{name,FeatureReporterMap-method} \alias{name,FeatureReporterMap_ref-method} \alias{name,Hardware-method} \alias{name,Hardware_ref-method} \alias{name,Hybridization-method} \alias{name,Image-method} \alias{name,ImageAcquisition-method} \alias{name,Image_ref-method} \alias{name,LabeledExtract-method} \alias{name,LabeledExtract_ref-method} \alias{name,MAGE-ML-method} \alias{name,MeasuredBioAssay-method} \alias{name,MeasuredBioAssayData-method} \alias{name,MeasuredBioAssayData_ref-method} \alias{name,MeasuredBioAssay_ref-method} \alias{name,MeasuredSignal-method} \alias{name,MeasuredSignal_ref-method} \alias{name,NameValueType-method} \alias{name,NodeValue-method} \alias{name,Organization-method} \alias{name,Organization_ref-method} \alias{name,Parameter-method} \alias{name,Parameter_ref-method} \alias{name,Person-method} \alias{name,Person_ref-method} \alias{name,PhysicalArrayDesign-method} \alias{name,PhysicalArrayDesign_ref-method} \alias{name,PhysicalBioAssay-method} \alias{name,PhysicalBioAssay_ref-method} \alias{name,PresentAbsent-method} \alias{name,PresentAbsent_ref-method} \alias{name,Protocol-method} \alias{name,Protocol_ref-method} \alias{name,PValue-method} \alias{name,PValue_ref-method} \alias{name,QuantitationTypeDimension-method} \alias{name,QuantitationTypeDimension_ref-method} \alias{name,QuantitationTypeMap-method} \alias{name,QuantitationTypeMap_ref-method} \alias{name,QuantitationType_ref-method} \alias{name,Ratio-method} \alias{name,Ratio_ref-method} \alias{name,Reporter-method} \alias{name,ReporterCompositeMap-method} \alias{name,ReporterCompositeMap_ref-method} \alias{name,ReporterDimension-method} \alias{name,ReporterDimension_ref-method} \alias{name,ReporterGroup-method} \alias{name,ReporterGroup_ref-method} \alias{name,Reporter_ref-method} \alias{name,Security-method} \alias{name,SecurityGroup-method} \alias{name,SecurityGroup_ref-method} \alias{name,Security_ref-method} \alias{name,Software-method} \alias{name,Software_ref-method} \alias{name,SpecializedQuantitationType-method} \alias{name,SpecializedQuantitationType_ref-method} \alias{name,StandardQuantitationType_ref-method} \alias{name,Transformation-method} \alias{name,Treatment-method} \alias{name,Zone-method} \alias{name,Zone_ref-method} \alias{nameValueType,PropertySets_assnlist-method} \alias{nameValueType,QualityControlStatistics_assnlist-method} \alias{nameValueType,SummaryStatistics_assnlist-method} \alias{newSequence,MismatchInformation-method} \alias{node,Nodes_assnlist-method} \alias{nodeContents,NodeContents_assnlist-method} \alias{nodeContents_assnlist,Node-method} \alias{nodes_assnlist,BioAssayDataCluster-method} \alias{nodes_assnlist,Node-method} \alias{nodeValue,NodeValue_assnlist-method} \alias{nodeValue_assnlist,Node-method} \alias{normalizationDescription_assn,ExperimentDesign-method} \alias{numArrays,ArrayGroup-method} \alias{numberOfFeatures,ArrayDesign-method} \alias{numberOfFeatures,PhysicalArrayDesign-method} \alias{numFeaturesPerCol,ZoneLayout-method} \alias{numFeaturesPerRow,ZoneLayout-method} \alias{ontologyEntries_assnlist,BioSequence-method} \alias{ontologyEntry,Action_assn-method} \alias{ontologyEntry,Annotations_assnlist-method} \alias{ontologyEntry,Associations_assnlist-method} \alias{ontologyEntry,Category_assn-method} \alias{ontologyEntry,Characteristics_assnlist-method} \alias{ontologyEntry,CompoundIndices_assnlist-method} \alias{ontologyEntry,ControlType_assn-method} \alias{ontologyEntry,DataType_assn-method} \alias{ontologyEntry,DefectType_assn-method} \alias{ontologyEntry,FailTypes_assnlist-method} \alias{ontologyEntry,FeatureShape_assn-method} \alias{ontologyEntry,FiducialType_assn-method} \alias{ontologyEntry,Format_assn-method} \alias{ontologyEntry,MaterialType_assn-method} \alias{ontologyEntry,OntologyEntries_assnlist-method} \alias{ontologyEntry,Parameters_assnlist-method} \alias{ontologyEntry,PolymerType_assn-method} \alias{ontologyEntry,Roles_assnlist-method} \alias{ontologyEntry,Scale_assn-method} \alias{ontologyEntry,Species_assn-method} \alias{ontologyEntry,SubstrateType_assn-method} \alias{ontologyEntry,SurfaceType_assn-method} \alias{ontologyEntry,TechnologyType_assn-method} \alias{ontologyEntry,Type_assn-method} \alias{ontologyEntry,Types_assnlist-method} \alias{ontologyEntry,Value_assn-method} \alias{ontologyEntry,WarningType_assn-method} \alias{ontologyReference_assn,OntologyEntry-method} \alias{organization,Contact_assnlist-method} \alias{organization,Organization_assnlist-method} \alias{organization_ref,Affiliation_assnref-method} \alias{organization_ref,ArrayManufacturers_assnreflist-method} \alias{organization_ref,Contacts_assnreflist-method} \alias{organization_ref,DesignProviders_assnreflist-method} \alias{organization_ref,HardwareManufacturers_assnreflist-method} \alias{organization_ref,Members_assnreflist-method} \alias{organization_ref,Owner_assnreflist-method} \alias{organization_ref,Parent_assnref-method} \alias{organization_ref,Performer_assnref-method} \alias{organization_ref,Providers_assnreflist-method} \alias{organization_ref,SoftwareManufacturers_assnreflist-method} \alias{organization_ref,SourceContact_assnreflist-method} \alias{orientationMark,ArrayGroup-method} \alias{orientationMarkPosition,ArrayGroup-method} \alias{originRelativeTo,Array-method} \alias{otherKind,Measurement-method} \alias{owner_assnreflist,Security-method} \alias{pages,BibliographicReference-method} \alias{parameter,ParameterTypes_assnlist-method} \alias{parameter_ref,ParameterType_assnref-method} \alias{parameters_assnlist,BibliographicReference-method} \alias{parameterType_assnref,ParameterValue-method} \alias{parameterTypes_assnlist,Hardware-method} \alias{parameterTypes_assnlist,Protocol-method} \alias{parameterTypes_assnlist,Software-method} \alias{parameterValue,ParameterValues_assnlist-method} \alias{parameterValues_assnlist,HardwareApplication-method} \alias{parameterValues_assnlist,ProtocolApplication-method} \alias{parameterValues_assnlist,SoftwareApplication-method} \alias{parent_assnref,Organization-method} \alias{performer_assnref,Audit-method} \alias{performers_assnreflist,ProtocolApplication-method} \alias{person_ref,ArrayManufacturers_assnreflist-method} \alias{person_ref,Contacts_assnreflist-method} \alias{person_ref,DesignProviders_assnreflist-method} \alias{person_ref,HardwareManufacturers_assnreflist-method} \alias{person_ref,Members_assnreflist-method} \alias{person_ref,Owner_assnreflist-method} \alias{person_ref,Performer_assnref-method} \alias{person_ref,Performers_assnreflist-method} \alias{person_ref,Providers_assnreflist-method} \alias{person_ref,SoftwareManufacturers_assnreflist-method} \alias{person_ref,SourceContact_assnreflist-method} \alias{phone,Organization-method} \alias{phone,Person-method} \alias{physicalArrayDesign,ArrayDesign_assnlist-method} \alias{physicalArrayDesign_ref,ArrayDesign_assnref-method} \alias{physicalBioAssay,BioAssay_assnlist-method} \alias{physicalBioAssay,PhysicalBioAssay_assnlist-method} \alias{physicalBioAssayData_assnlist,PhysicalBioAssay-method} \alias{physicalBioAssay_ref,BioAssay_assnref-method} \alias{physicalBioAssay_ref,BioAssays_assnreflist-method} \alias{physicalBioAssay_ref,PhysicalBioAssay_assnref-method} \alias{physicalBioAssay_ref,PhysicalBioAssaySource_assnref-method} \alias{physicalBioAssay_ref,PhysicalBioAssayTarget_assnref-method} \alias{physicalBioAssay_ref,SourceBioAssays_assnreflist-method} \alias{physicalBioAssay_ref,Target_assnref-method} \alias{physicalBioAssay_ref,TopLevelBioAssays_assnreflist-method} \alias{physicalBioAssaySource_assnref,FeatureExtraction-method} \alias{polymerType_assn,BioSequence-method} \alias{position,Position_assn-method} \alias{position_assn,Feature-method} \alias{position_assn,Fiducial-method} \alias{positionDelta,PositionDelta_assn-method} \alias{positionDelta_assn,FeatureDefect-method} \alias{positionDelta_assn,ZoneDefect-method} \alias{presentAbsent,QuantitationType_assnlist-method} \alias{presentAbsent_ref,QuantitationType_assnref-method} \alias{presentAbsent_ref,QuantitationTypes_assnreflist-method} \alias{presentAbsent_ref,SourcesQuantitationType_assnreflist-method} \alias{presentAbsent_ref,TargetQuantitationType_assnref-method} \alias{producerTransformation_assn,DerivedBioAssayData-method} \alias{propertySets_assnlist,Array-method} \alias{propertySets_assnlist,ArrayDesign-method} \alias{propertySets_assnlist,ArrayGroup-method} \alias{propertySets_assnlist,ArrayManufacture-method} \alias{propertySets_assnlist,ArrayManufactureDeviation-method} \alias{propertySets_assnlist,Audit-method} \alias{propertySets_assnlist,BibliographicReference-method} \alias{propertySets_assnlist,BioAssayCreation-method} \alias{propertySets_assnlist,BioAssayDataCluster-method} \alias{propertySets_assnlist,BioAssayDimension-method} \alias{propertySets_assnlist,BioAssayMap-method} \alias{propertySets_assnlist,BioAssayMapping-method} \alias{propertySets_assnlist,BioAssayTreatment-method} \alias{propertySets_assnlist,BioDataCube-method} \alias{propertySets_assnlist,BioDataTuples-method} \alias{propertySets_assnlist,BioMaterialMeasurement-method} \alias{propertySets_assnlist,BioSample-method} \alias{propertySets_assnlist,BioSequence-method} \alias{propertySets_assnlist,BioSource-method} \alias{propertySets_assnlist,Channel-method} \alias{propertySets_assnlist,CompositeCompositeMap-method} \alias{propertySets_assnlist,CompositeGroup-method} \alias{propertySets_assnlist,CompositePosition-method} \alias{propertySets_assnlist,CompositeSequence-method} \alias{propertySets_assnlist,CompositeSequenceDimension-method} \alias{propertySets_assnlist,Compound-method} \alias{propertySets_assnlist,CompoundMeasurement-method} \alias{propertySets_assnlist,ConcentrationUnit-method} \alias{propertySets_assnlist,Database-method} \alias{propertySets_assnlist,DatabaseEntry-method} \alias{propertySets_assnlist,DerivedBioAssay-method} \alias{propertySets_assnlist,DerivedBioAssayData-method} \alias{propertySets_assnlist,DerivedSignal-method} \alias{propertySets_assnlist,Description-method} \alias{propertySets_assnlist,DesignElementMapping-method} \alias{propertySets_assnlist,DistanceUnit-method} \alias{propertySets_assnlist,Error-method} \alias{propertySets_assnlist,ExpectedValue-method} \alias{propertySets_assnlist,Experiment-method} \alias{propertySets_assnlist,ExperimentalFactor-method} \alias{propertySets_assnlist,ExperimentDesign-method} \alias{propertySets_assnlist,ExternalReference-method} \alias{propertySets_assnlist,FactorValue-method} \alias{propertySets_assnlist,Failed-method} \alias{propertySets_assnlist,Feature-method} \alias{propertySets_assnlist,FeatureDefect-method} \alias{propertySets_assnlist,FeatureDimension-method} \alias{propertySets_assnlist,FeatureExtraction-method} \alias{propertySets_assnlist,FeatureGroup-method} \alias{propertySets_assnlist,FeatureInformation-method} \alias{propertySets_assnlist,FeatureLocation-method} \alias{propertySets_assnlist,FeatureReporterMap-method} \alias{propertySets_assnlist,Fiducial-method} \alias{propertySets_assnlist,Hardware-method} \alias{propertySets_assnlist,HardwareApplication-method} \alias{propertySets_assnlist,Hybridization-method} \alias{propertySets_assnlist,Image-method} \alias{propertySets_assnlist,ImageAcquisition-method} \alias{propertySets_assnlist,LabeledExtract-method} \alias{propertySets_assnlist,MAGE-ML-method} \alias{propertySets_assnlist,ManufactureLIMS-method} \alias{propertySets_assnlist,ManufactureLIMSBiomaterial-method} \alias{propertySets_assnlist,MassUnit-method} \alias{propertySets_assnlist,MeasuredBioAssay-method} \alias{propertySets_assnlist,MeasuredBioAssayData-method} \alias{propertySets_assnlist,MeasuredSignal-method} \alias{propertySets_assnlist,Measurement-method} \alias{propertySets_assnlist,MismatchInformation-method} \alias{propertySets_assnlist,NameValueType-method} \alias{propertySets_assnlist,Node-method} \alias{propertySets_assnlist,NodeContents-method} \alias{propertySets_assnlist,NodeValue-method} \alias{propertySets_assnlist,OntologyEntry-method} \alias{propertySets_assnlist,Organization-method} \alias{propertySets_assnlist,Parameter-method} \alias{propertySets_assnlist,ParameterValue-method} \alias{propertySets_assnlist,Person-method} \alias{propertySets_assnlist,PhysicalArrayDesign-method} \alias{propertySets_assnlist,PhysicalBioAssay-method} \alias{propertySets_assnlist,Position-method} \alias{propertySets_assnlist,PositionDelta-method} \alias{propertySets_assnlist,PresentAbsent-method} \alias{propertySets_assnlist,Protocol-method} \alias{propertySets_assnlist,ProtocolApplication-method} \alias{propertySets_assnlist,PValue-method} \alias{propertySets_assnlist,QuantitationTypeDimension-method} \alias{propertySets_assnlist,QuantitationTypeMap-method} \alias{propertySets_assnlist,QuantitationTypeMapping-method} \alias{propertySets_assnlist,QuantityUnit-method} \alias{propertySets_assnlist,Ratio-method} \alias{propertySets_assnlist,Reporter-method} \alias{propertySets_assnlist,ReporterCompositeMap-method} \alias{propertySets_assnlist,ReporterDimension-method} \alias{propertySets_assnlist,ReporterGroup-method} \alias{propertySets_assnlist,ReporterPosition-method} \alias{propertySets_assnlist,Security-method} \alias{propertySets_assnlist,SecurityGroup-method} \alias{propertySets_assnlist,SeqFeature-method} \alias{propertySets_assnlist,SeqFeatureLocation-method} \alias{propertySets_assnlist,SequencePosition-method} \alias{propertySets_assnlist,Software-method} \alias{propertySets_assnlist,SoftwareApplication-method} \alias{propertySets_assnlist,SpecializedQuantitationType-method} \alias{propertySets_assnlist,TemperatureUnit-method} \alias{propertySets_assnlist,TimeUnit-method} \alias{propertySets_assnlist,Transformation-method} \alias{propertySets_assnlist,Treatment-method} \alias{propertySets_assnlist,VolumeUnit-method} \alias{propertySets_assnlist,Zone-method} \alias{propertySets_assnlist,ZoneDefect-method} \alias{propertySets_assnlist,ZoneGroup-method} \alias{propertySets_assnlist,ZoneLayout-method} \alias{protocol,Protocol_assnlist-method} \alias{protocolApplication,ProtocolApplications_assnlist-method} \alias{protocolApplications_assnlist,ArrayDesign-method} \alias{protocolApplications_assnlist,ArrayManufacture-method} \alias{protocolApplications_assnlist,BioAssayCreation-method} \alias{protocolApplications_assnlist,BioAssayMap-method} \alias{protocolApplications_assnlist,BioAssayTreatment-method} \alias{protocolApplications_assnlist,CompositeCompositeMap-method} \alias{protocolApplications_assnlist,FeatureExtraction-method} \alias{protocolApplications_assnlist,FeatureReporterMap-method} \alias{protocolApplications_assnlist,Hybridization-method} \alias{protocolApplications_assnlist,ImageAcquisition-method} \alias{protocolApplications_assnlist,PhysicalArrayDesign-method} \alias{protocolApplications_assnlist,QuantitationTypeMap-method} \alias{protocolApplications_assnlist,ReporterCompositeMap-method} \alias{protocolApplications_assnlist,Transformation-method} \alias{protocolApplications_assnlist,Treatment-method} \alias{protocol_assnlist,Protocol_package-method} \alias{protocol_assnref,ProtocolApplication-method} \alias{protocol_package,MAGE-ML-method} \alias{protocol_ref,Protocol_assnref-method} \alias{providers_assnreflist,Experiment-method} \alias{publication,BibliographicReference-method} \alias{publisher,BibliographicReference-method} \alias{pvalue,ConfidenceIndicator_assnlist-method} \alias{pvalue,QuantitationType_assnlist-method} \alias{pvalue_ref,ConfidenceIndicators_assnreflist-method} \alias{pvalue_ref,QuantitationType_assnref-method} \alias{pvalue_ref,QuantitationTypes_assnreflist-method} \alias{pvalue_ref,SourcesQuantitationType_assnreflist-method} \alias{pvalue_ref,TargetQuantitationType_assnref-method} \alias{quality,ManufactureLIMS-method} \alias{quality,ManufactureLIMSBiomaterial-method} \alias{qualityControlDescription_assn,ExperimentDesign-method} \alias{qualityControlStatistics_assnlist,ArrayManufacture-method} \alias{qualityControlStatistics_assnlist,BioSample-method} \alias{qualityControlStatistics_assnlist,BioSource-method} \alias{qualityControlStatistics_assnlist,LabeledExtract-method} \alias{quantitationDimension_assnref,NodeContents-method} \alias{quantitationType_assnlist,QuantitationType_package-method} \alias{quantitationType_assnref,QuantitationTypeTuple-method} \alias{quantitationTypeDimension,QuantitationTypeDimension_assnlist-method} \alias{quantitationTypeDimension_assnlist,BioAssayData_package-method} \alias{quantitationTypeDimension_assnref,DerivedBioAssayData-method} \alias{quantitationTypeDimension_assnref,MeasuredBioAssayData-method} \alias{quantitationTypeDimension_ref,QuantitationDimension_assnref-method} \alias{quantitationTypeDimension_ref,QuantitationTypeDimension_assnref-method} \alias{quantitationTypeMap,QuantitationTypeMap_assnlist-method} \alias{quantitationTypeMap_assnlist,BioAssayData_package-method} \alias{quantitationTypeMapping,QuantitationTypeMapping_assn-method} \alias{quantitationTypeMapping_assn,Transformation-method} \alias{quantitationTypeMap_ref,QuantitationTypeMaps_assnreflist-method} \alias{quantitationTypeMaps_assnreflist,DerivedSignal-method} \alias{quantitationTypeMaps_assnreflist,Error-method} \alias{quantitationTypeMaps_assnreflist,ExpectedValue-method} \alias{quantitationTypeMaps_assnreflist,Failed-method} \alias{quantitationTypeMaps_assnreflist,MeasuredSignal-method} \alias{quantitationTypeMaps_assnreflist,PresentAbsent-method} \alias{quantitationTypeMaps_assnreflist,PValue-method} \alias{quantitationTypeMaps_assnreflist,QuantitationTypeMapping-method} \alias{quantitationTypeMaps_assnreflist,Ratio-method} \alias{quantitationTypeMaps_assnreflist,SpecializedQuantitationType-method} \alias{quantitationType_package,MAGE-ML-method} \alias{quantitationTypes_assnreflist,QuantitationTypeDimension-method} \alias{quantitationTypeTuple,QuantitationTypeTuples_assnlist-method} \alias{quantitationTypeTuples_assnlist,DesignElementTuple-method} \alias{quantityUnit,Unit_assn-method} \alias{ratio,QuantitationType_assnlist-method} \alias{ratio_ref,QuantitationType_assnref-method} \alias{ratio_ref,QuantitationTypes_assnreflist-method} \alias{ratio_ref,SourcesQuantitationType_assnreflist-method} \alias{ratio_ref,TargetQuantitationType_assnref-method} \alias{regions_assnlist,SeqFeature-method} \alias{releaseDate,SoftwareApplication-method} \alias{replacedLength,MismatchInformation-method} \alias{replicateDescription_assn,ExperimentDesign-method} \alias{reporter,DesignElement_assnlist-method} \alias{reporter,Reporter_assnlist-method} \alias{reporter_assnlist,DesignElement_package-method} \alias{reporter_assnref,FeatureReporterMap-method} \alias{reporter_assnref,ReporterPosition-method} \alias{reporterCompositeMap,DesignElementMap_assnlist-method} \alias{reporterCompositeMap,ReporterCompositeMap_assnlist-method} \alias{reporterCompositeMap_assnlist,DesignElement_package-method} \alias{reporterCompositeMap_ref,DesignElementMaps_assnreflist-method} \alias{reporterCompositeMap_ref,ReporterCompositeMaps_assnreflist-method} \alias{reporterCompositeMaps_assnreflist,CompositeSequence-method} \alias{reporterDimension,DesignElementDimension_assnlist-method} \alias{reporterDimension_ref,DesignElementDimension_assnref-method} \alias{reporterGroup,ReporterGroup_assnlist-method} \alias{reporterGroup_assnlist,ArrayDesign_package-method} \alias{reporterGroup_ref,ReporterGroups_assnreflist-method} \alias{reporterGroups_assnreflist,ArrayDesign-method} \alias{reporterGroups_assnreflist,PhysicalArrayDesign-method} \alias{reporterPosition,Coordinate_assn-method} \alias{reporterPosition,ReporterPositionSources_assnlist-method} \alias{reporterPositionSources_assnlist,ReporterCompositeMap-method} \alias{reporter_ref,DesignElement_assnref-method} \alias{reporter_ref,Reporter_assnref-method} \alias{reporter_ref,Reporters_assnreflist-method} \alias{reporters_assnreflist,ReporterDimension-method} \alias{reporters_assnreflist,ReporterGroup-method} \alias{roles_assnlist,Organization-method} \alias{roles_assnlist,Person-method} \alias{scale_assn,DerivedSignal-method} \alias{scale_assn,Error-method} \alias{scale_assn,ExpectedValue-method} \alias{scale_assn,Failed-method} \alias{scale_assn,MeasuredSignal-method} \alias{scale_assn,NodeValue-method} \alias{scale_assn,PresentAbsent-method} \alias{scale_assn,PValue-method} \alias{scale_assn,Ratio-method} \alias{scale_assn,SpecializedQuantitationType-method} \alias{security,Security_assnlist-method} \alias{security_assnlist,AuditAndSecurity_package-method} \alias{security_assnref,Array-method} \alias{security_assnref,ArrayDesign-method} \alias{security_assnref,ArrayGroup-method} \alias{security_assnref,ArrayManufacture-method} \alias{security_assnref,Audit-method} \alias{security_assnref,BibliographicReference-method} \alias{security_assnref,BioAssayCreation-method} \alias{security_assnref,BioAssayDataCluster-method} \alias{security_assnref,BioAssayDimension-method} \alias{security_assnref,BioAssayMap-method} \alias{security_assnref,BioAssayTreatment-method} \alias{security_assnref,BioSample-method} \alias{security_assnref,BioSequence-method} \alias{security_assnref,BioSource-method} \alias{security_assnref,Channel-method} \alias{security_assnref,CompositeCompositeMap-method} \alias{security_assnref,CompositeGroup-method} \alias{security_assnref,CompositeSequence-method} \alias{security_assnref,CompositeSequenceDimension-method} \alias{security_assnref,Compound-method} \alias{security_assnref,Database-method} \alias{security_assnref,DerivedBioAssay-method} \alias{security_assnref,DerivedBioAssayData-method} \alias{security_assnref,DerivedSignal-method} \alias{security_assnref,Description-method} \alias{security_assnref,Error-method} \alias{security_assnref,ExpectedValue-method} \alias{security_assnref,Experiment-method} \alias{security_assnref,ExperimentalFactor-method} \alias{security_assnref,ExperimentDesign-method} \alias{security_assnref,FactorValue-method} \alias{security_assnref,Failed-method} \alias{security_assnref,Feature-method} \alias{security_assnref,FeatureDimension-method} \alias{security_assnref,FeatureExtraction-method} \alias{security_assnref,FeatureGroup-method} \alias{security_assnref,FeatureReporterMap-method} \alias{security_assnref,Fiducial-method} \alias{security_assnref,Hardware-method} \alias{security_assnref,HardwareApplication-method} \alias{security_assnref,Hybridization-method} \alias{security_assnref,Image-method} \alias{security_assnref,ImageAcquisition-method} \alias{security_assnref,LabeledExtract-method} \alias{security_assnref,MAGE-ML-method} \alias{security_assnref,ManufactureLIMS-method} \alias{security_assnref,ManufactureLIMSBiomaterial-method} \alias{security_assnref,MeasuredBioAssay-method} \alias{security_assnref,MeasuredBioAssayData-method} \alias{security_assnref,MeasuredSignal-method} \alias{security_assnref,Node-method} \alias{security_assnref,NodeContents-method} \alias{security_assnref,Organization-method} \alias{security_assnref,Parameter-method} \alias{security_assnref,Person-method} \alias{security_assnref,PhysicalArrayDesign-method} \alias{security_assnref,PhysicalBioAssay-method} \alias{security_assnref,PresentAbsent-method} \alias{security_assnref,Protocol-method} \alias{security_assnref,ProtocolApplication-method} \alias{security_assnref,PValue-method} \alias{security_assnref,QuantitationTypeDimension-method} \alias{security_assnref,QuantitationTypeMap-method} \alias{security_assnref,Ratio-method} \alias{security_assnref,Reporter-method} \alias{security_assnref,ReporterCompositeMap-method} \alias{security_assnref,ReporterDimension-method} \alias{security_assnref,ReporterGroup-method} \alias{security_assnref,Security-method} \alias{security_assnref,SecurityGroup-method} \alias{security_assnref,SeqFeature-method} \alias{security_assnref,Software-method} \alias{security_assnref,SoftwareApplication-method} \alias{security_assnref,SpecializedQuantitationType-method} \alias{security_assnref,Transformation-method} \alias{security_assnref,Treatment-method} \alias{security_assnref,Zone-method} \alias{securityGroup,SecurityGroup_assnlist-method} \alias{securityGroup_assnlist,AuditAndSecurity_package-method} \alias{securityGroup_ref,SecurityGroups_assnreflist-method} \alias{securityGroups_assnreflist,Security-method} \alias{security_ref,Security_assnref-method} \alias{seqFeature,SeqFeatures_assnlist-method} \alias{seqFeatureLocation,Regions_assnlist-method} \alias{seqFeatureLocation,Subregions_assnlist-method} \alias{seqFeatures_assnlist,BioSequence-method} \alias{sequenceDatabases_assnlist,BioSequence-method} \alias{sequencePosition,Coordinate_assn-method} \alias{serialNumber,HardwareApplication-method} \alias{software,Software_assnlist-method} \alias{softwareApplication,SoftwareApplications_assnlist-method} \alias{softwareApplications_assnlist,ProtocolApplication-method} \alias{software_assnlist,Protocol_package-method} \alias{software_assnref,SoftwareApplication-method} \alias{softwareManufacturers_assnreflist,Software-method} \alias{software_ref,Software_assnref-method} \alias{software_ref,Softwares_assnreflist-method} \alias{softwares_assnreflist,Hardware-method} \alias{softwares_assnreflist,Protocol-method} \alias{softwares_assnreflist,Software-method} \alias{sourceBioAssays_assnreflist,BioAssayMap-method} \alias{sourceBioMaterialMeasurements_assnlist,BioAssayCreation-method} \alias{sourceBioMaterialMeasurements_assnlist,Hybridization-method} \alias{sourceBioMaterialMeasurements_assnlist,Treatment-method} \alias{sourceContact_assnreflist,BioSource-method} \alias{sourcesQuantitationType_assnreflist,QuantitationTypeMap-method} \alias{spacingBetweenCols,ZoneLayout-method} \alias{spacingBetweenRows,ZoneLayout-method} \alias{spacingsBetweenZonesX,ZoneGroup-method} \alias{spacingsBetweenZonesY,ZoneGroup-method} \alias{specializedQuantitationType,QuantitationType_assnlist-method} \alias{specializedQuantitationType_ref,QuantitationType_assnref-method} \alias{specializedQuantitationType_ref,QuantitationTypes_assnreflist-method} \alias{specializedQuantitationType_ref,SourcesQuantitationType_assnreflist-method} \alias{specializedQuantitationType_ref,TargetQuantitationType_assnref-method} \alias{species_assn,BioSequence-method} \alias{species_assn,CompositeGroup-method} \alias{species_assn,FeatureGroup-method} \alias{species_assn,ReporterGroup-method} \alias{startCoord,MismatchInformation-method} \alias{strandType,SeqFeatureLocation-method} \alias{subregions_assnlist,SeqFeatureLocation-method} \alias{substrateType_assn,ArrayGroup-method} \alias{summaryStatistics_assnlist,DerivedBioAssayData-method} \alias{summaryStatistics_assnlist,MeasuredBioAssayData-method} \alias{surfaceType_assn,PhysicalArrayDesign-method} \alias{target_assnref,BioAssayTreatment-method} \alias{target_assnref,ImageAcquisition-method} \alias{targetQuantitationType_assnref,Error-method} \alias{targetQuantitationType_assnref,ExpectedValue-method} \alias{targetQuantitationType_assnref,PValue-method} \alias{targetQuantitationType_assnref,QuantitationTypeMap-method} \alias{technologyType_assn,FeatureGroup-method} \alias{temperatureUnit,Unit_assn-method} \alias{timeUnit,Unit_assn-method} \alias{tolerance,ArrayManufacture-method} \alias{tollFreePhone,Organization-method} \alias{tollFreePhone,Person-method} \alias{topLevelBioAssays_assnreflist,ExperimentDesign-method} \alias{transformation,ProducerTransformation_assn-method} \alias{treatment,Treatments_assnlist-method} \alias{treatments_assnlist,BioSample-method} \alias{treatments_assnlist,BioSource-method} \alias{treatments_assnlist,LabeledExtract-method} \alias{type,Measurement-method} \alias{type,NameValueType-method} \alias{type_assn,BioSample-method} \alias{type_assn,BioSequence-method} \alias{type_assn,DatabaseEntry-method} \alias{type_assn,DerivedBioAssay-method} \alias{type_assn,Hardware-method} \alias{type_assn,NodeValue-method} \alias{type_assn,Protocol-method} \alias{type_assn,Software-method} \alias{types_assnlist,CompositeGroup-method} \alias{types_assnlist,ExperimentDesign-method} \alias{types_assnlist,FeatureGroup-method} \alias{types_assnlist,ReporterGroup-method} \alias{unit_assn,Measurement-method} \alias{unitName,ConcentrationUnit-method} \alias{unitName,DistanceUnit-method} \alias{unitName,MassUnit-method} \alias{unitName,QuantityUnit-method} \alias{unitName,TemperatureUnit-method} \alias{unitName,TimeUnit-method} \alias{unitName,VolumeUnit-method} \alias{unitNameCV,ConcentrationUnit-method} \alias{unitNameCV,DistanceUnit-method} \alias{unitNameCV,MassUnit-method} \alias{unitNameCV,QuantityUnit-method} \alias{unitNameCV,TemperatureUnit-method} \alias{unitNameCV,TimeUnit-method} \alias{unitNameCV,VolumeUnit-method} \alias{upperLeftX,Zone-method} \alias{upperLeftY,Zone-method} \alias{uri,BibliographicReference-method} \alias{uri,Database-method} \alias{uri,DatabaseEntry-method} \alias{uri,Description-method} \alias{uri,Hardware-method} \alias{uri,Image-method} \alias{uri,Organization-method} \alias{uri,Person-method} \alias{uri,Protocol-method} \alias{uri,Software-method} \alias{value,Datum-method} \alias{value,Measurement-method} \alias{value,NameValueType-method} \alias{value,NodeValue-method} \alias{value,OntologyEntry-method} \alias{value,ParameterValue-method} \alias{value_assn,FactorValue-method} \alias{version,ArrayDesign-method} \alias{version,Database-method} \alias{version,PhysicalArrayDesign-method} \alias{version,SoftwareApplication-method} \alias{volume,BibliographicReference-method} \alias{volumeUnit,Unit_assn-method} \alias{warningType_assn,Reporter-method} \alias{width,ArrayGroup-method} \alias{x,Position-method} \alias{y,Position-method} \alias{year,BibliographicReference-method} \alias{zone,ZoneLocations_assnlist-method} \alias{zone_assnref,Feature-method} \alias{zone_assnref,ZoneDefect-method} \alias{zoneDefect,Adjustments_assnlist-method} \alias{zoneGroup,ZoneGroups_assnlist-method} \alias{zoneGroups_assnlist,PhysicalArrayDesign-method} \alias{zoneLayout,ZoneLayout_assn-method} \alias{zoneLayout_assn,ZoneGroup-method} \alias{zoneLocations_assnlist,ZoneGroup-method} \alias{zone_ref,Zone_assnref-method} \alias{zonesPerX,ZoneGroup-method} \alias{zonesPerY,ZoneGroup-method} \title{ (Auto-generated) classes and methods for navigating DTT sample attributes. } \description{ These classes and methods facilitate navigation of the Affymetrix DTT sample attribute files. DTT files are generated by the Affymetrix GCOS application. Specifically, the classes are R representations of the Affymetrix classes defined in MAGE-ML.dtd. The 'show' methods for these classs indicate how objects are to be accessed; details are in the `Retrieving MAGE and ARR sample attributes' vignette. } \section{Objects from the Class}{ Objects are created internally, by parsing XML retrieved from ARR, and are not created directly by the user. } \section{Slots}{ Objects have a variety of slots. To discover slot names and content type, see the \code{slotNames} portion of the example, below. } \section{Extends}{ Class \code{"\linkS4class{DTTCompatibility}"}, directly. Class \code{"\linkS4class{AffyCompatible}"}, by class "DTTCompatibility", distance 2. } \section{Methods}{ 'Accessor' methods are defined on auto-generated classes to access slot content. Accessors are apparent from displaying the object; each line of the display is of the form \code{accessor: content}. To retrieve the content of an instance \code{object}, invoke \code{accessor(object)}. Some objects contains several instances of another object. These 'typed associations' are represented by the \code{\linkS4class{.TypedAssociation}} class, and are navigated or subset as one would a standard R vector, e.g., using \code{[}, \code{[[}. A useful paradigm for displaying all instances is illustrated in the vignette. } \author{Martin Morgan } \seealso{ Vignette `Retrieving MAGE and ARR sample attributes'. } \examples{ ## defined and auto-generated classes names(slot(getClass("DTTCompatibility", where=getNamespace("AffyCompatible")), "subclasses")) } \keyword{classes}