Uses of Class
ubic.gemma.model.expression.experiment.ExpressionExperimentDetailsValueObject

Packages that use ExpressionExperimentDetailsValueObject

Package	Description
ubic.gemma.core.analysis.report
ubic.gemma.core.tasks.visualization
ubic.gemma.persistence.service.analysis.expression
ubic.gemma.persistence.service.analysis.expression.diff
ubic.gemma.persistence.service.expression.experiment

Uses of ExpressionExperimentDetailsValueObject in ubic.gemma.core.analysis.report

Methods in ubic.gemma.core.analysis.report that return ExpressionExperimentDetailsValueObject

Modifier and Type	Method	Description
ExpressionExperimentDetailsValueObject	ExpressionExperimentReportService.generateSummary(Long id)	Generate a value object that contain summary information about links, biomaterials, and datavectors
ExpressionExperimentDetailsValueObject	ExpressionExperimentReportServiceImpl.generateSummary(Long id)

Methods in ubic.gemma.core.analysis.report that return types with arguments of type ExpressionExperimentDetailsValueObject

Modifier and Type	Method	Description
Collection<ExpressionExperimentDetailsValueObject>	ExpressionExperimentReportService.generateSummaryObjects()	Generates reports on ALL experiments, including 'private' ones.
Collection<ExpressionExperimentDetailsValueObject>	ExpressionExperimentReportServiceImpl.generateSummaryObjects()
Collection<ExpressionExperimentDetailsValueObject>	ExpressionExperimentReportService.retrieveSummaryObjects(Collection<Long> ids)	retrieves a collection of cached value objects containing summary information
Collection<ExpressionExperimentDetailsValueObject>	ExpressionExperimentReportServiceImpl.retrieveSummaryObjects(Collection<Long> ids)

Method parameters in ubic.gemma.core.analysis.report with type arguments of type ExpressionExperimentDetailsValueObject

Modifier and Type	Method	Description
void	ExpressionExperimentReportService.getAnnotationInformation(Collection<ExpressionExperimentDetailsValueObject> vos)
void	ExpressionExperimentReportServiceImpl.getAnnotationInformation(Collection<ExpressionExperimentDetailsValueObject> vos)	Populate information about how many annotations there are, and how many factor values there are.
void	ExpressionExperimentReportService.populateEventInformation(Collection<ExpressionExperimentDetailsValueObject> vos)
void	ExpressionExperimentReportServiceImpl.populateEventInformation(Collection<ExpressionExperimentDetailsValueObject> vos)	Fills in event and security information from the database.
void	ExpressionExperimentReportService.populateReportInformation(Collection<ExpressionExperimentDetailsValueObject> vos)	Fills in link analysis and differential expression analysis summaries, and other info from the report.
void	ExpressionExperimentReportServiceImpl.populateReportInformation(Collection<ExpressionExperimentDetailsValueObject> vos)

Uses of ExpressionExperimentDetailsValueObject in ubic.gemma.core.tasks.visualization

Methods in ubic.gemma.core.tasks.visualization that return types with arguments of type ExpressionExperimentDetailsValueObject

Modifier and Type	Method	Description
Collection<ExpressionExperimentDetailsValueObject>	DifferentialExpressionSearchTaskCommand.getExperimentGroup()

Uses of ExpressionExperimentDetailsValueObject in ubic.gemma.persistence.service.analysis.expression

Methods in ubic.gemma.persistence.service.analysis.expression that return types with arguments of type ExpressionExperimentDetailsValueObject

Modifier and Type	Method	Description
Collection<ExpressionExperimentDetailsValueObject>	ExpressionExperimentSetDao.getExperimentValueObjectsInSet(Long id)
Collection<ExpressionExperimentDetailsValueObject>	ExpressionExperimentSetDaoImpl.getExperimentValueObjectsInSet(Long id)

Uses of ExpressionExperimentDetailsValueObject in ubic.gemma.persistence.service.analysis.expression.diff

Methods in ubic.gemma.persistence.service.analysis.expression.diff that return types with arguments of type ExpressionExperimentDetailsValueObject

Modifier and Type	Method	Description
Map<ExpressionExperimentDetailsValueObject,Collection<DifferentialExpressionAnalysisValueObject>>	DifferentialExpressionAnalysisService.findByExperimentIds(Collection<Long> experimentIds, boolean includeSubSets, boolean includeAssays)	Given a set of ids, find experiments or subsets that have differential expression analyses.
Map<ExpressionExperimentDetailsValueObject,Collection<DifferentialExpressionAnalysisValueObject>>	DifferentialExpressionAnalysisServiceImpl.findByExperimentIds(Collection<Long> experimentIds, boolean includeSubSets, boolean includeAssays)

Uses of ExpressionExperimentDetailsValueObject in ubic.gemma.persistence.service.expression.experiment

Methods in ubic.gemma.persistence.service.expression.experiment that return types with arguments of type ExpressionExperimentDetailsValueObject

Modifier and Type	Method	Description
Collection<ExpressionExperimentDetailsValueObject>	ExpressionExperimentSetService.getExperimentValueObjectsInSet(Long id)	Get the member experiment value objects for the set id; security filtered.
Collection<ExpressionExperimentDetailsValueObject>	ExpressionExperimentSetServiceImpl.getExperimentValueObjectsInSet(Long id)
Slice<ExpressionExperimentDetailsValueObject>	ExpressionExperimentDao.loadDetailsValueObjects(Collection<Long> ids, Taxon taxon, Sort sort, int offset, int limit)	Special method for front-end access.
Slice<ExpressionExperimentDetailsValueObject>	ExpressionExperimentDaoImpl.loadDetailsValueObjects(Collection<Long> ids, Taxon taxon, Sort sort, int offset, int limit)
Slice<ExpressionExperimentDetailsValueObject>	ExpressionExperimentService.loadDetailsValueObjects(Collection<Long> ids, Taxon taxon, Sort sort, int offset, int limit)
Slice<ExpressionExperimentDetailsValueObject>	ExpressionExperimentServiceImpl.loadDetailsValueObjects(Collection<Long> ids, Taxon taxon, Sort sort, int offset, int limit)
List<ExpressionExperimentDetailsValueObject>	ExpressionExperimentDao.loadDetailsValueObjectsByIds(Collection<Long> ids)	Like ExpressionExperimentDao.loadDetailsValueObjects(Collection, Taxon, Sort, int, int), but returning a list.
List<ExpressionExperimentDetailsValueObject>	ExpressionExperimentDaoImpl.loadDetailsValueObjectsByIds(Collection<Long> ids)
List<ExpressionExperimentDetailsValueObject>	ExpressionExperimentService.loadDetailsValueObjectsByIds(Collection<Long> ids)
List<ExpressionExperimentDetailsValueObject>	ExpressionExperimentServiceImpl.loadDetailsValueObjectsByIds(Collection<Long> ids)
List<ExpressionExperimentDetailsValueObject>	ExpressionExperimentDao.loadDetailsValueObjectsByIdsWithCache(Collection<Long> ids)	Flavour of ExpressionExperimentDao.loadDetailsValueObjectsByIds(Collection), but using the query cache.
Slice<ExpressionExperimentDetailsValueObject>	ExpressionExperimentDao.loadDetailsValueObjectsByIdsWithCache(Collection<Long> ids, Taxon taxon, Sort sort, int offset, int limit)	Flavour of ExpressionExperimentDao.loadDetailsValueObjectsByIds(Collection), but using the query cache.
List<ExpressionExperimentDetailsValueObject>	ExpressionExperimentDaoImpl.loadDetailsValueObjectsByIdsWithCache(Collection<Long> ids)
Slice<ExpressionExperimentDetailsValueObject>	ExpressionExperimentDaoImpl.loadDetailsValueObjectsByIdsWithCache(Collection<Long> ids, Taxon taxon, Sort sort, int offset, int limit)
List<ExpressionExperimentDetailsValueObject>	ExpressionExperimentService.loadDetailsValueObjectsByIdsWithCache(Collection<Long> ids)
List<ExpressionExperimentDetailsValueObject>	ExpressionExperimentServiceImpl.loadDetailsValueObjectsByIdsWithCache(Collection<Long> ids)
Slice<ExpressionExperimentDetailsValueObject>	ExpressionExperimentService.loadDetailsValueObjectsWithCache(Collection<Long> ids, Taxon taxon, Sort sort, int offset, int limit)
Slice<ExpressionExperimentDetailsValueObject>	ExpressionExperimentServiceImpl.loadDetailsValueObjectsWithCache(Collection<Long> ids, Taxon taxon, Sort sort, int offset, int limit)