Uses of Class
ubic.gemma.model.analysis.expression.ExpressionExperimentSet

Packages that use ExpressionExperimentSet

Package	Description
ubic.gemma.core.analysis.preprocess	This package contains classes for preprocessing expression data.
ubic.gemma.core.search
ubic.gemma.core.search.source
ubic.gemma.model.analysis.expression
ubic.gemma.persistence.service.analysis.expression
ubic.gemma.persistence.service.expression.experiment

Uses of ExpressionExperimentSet in ubic.gemma.core.analysis.preprocess

Methods in ubic.gemma.core.analysis.preprocess that return ExpressionExperimentSet

Modifier and Type	Method	Description
ExpressionExperimentSet	SplitExperimentService.split(ExpressionExperiment expressionExperiment, ExperimentalFactor splitOn, boolean postProcess)	Split an experiment into multiple experiments based on a factor.
ExpressionExperimentSet	SplitExperimentServiceImpl.split(ExpressionExperiment toSplit, ExperimentalFactor splitOn, boolean postProcess)

Uses of ExpressionExperimentSet in ubic.gemma.core.search

Methods in ubic.gemma.core.search that return types with arguments of type ExpressionExperimentSet

Modifier and Type	Method	Description
default Collection<SearchResult<ExpressionExperimentSet>>	SearchSource.searchExperimentSet(SearchSettings settings, SearchContext context)

Uses of ExpressionExperimentSet in ubic.gemma.core.search.source

Methods in ubic.gemma.core.search.source that return types with arguments of type ExpressionExperimentSet

Modifier and Type	Method	Description
Collection<SearchResult<ExpressionExperimentSet>>	CompositeSearchSource.searchExperimentSet(SearchSettings settings, SearchContext context)
Collection<SearchResult<ExpressionExperimentSet>>	DatabaseSearchSource.searchExperimentSet(SearchSettings settings, SearchContext context)
Collection<SearchResult<ExpressionExperimentSet>>	HibernateSearchSource.searchExperimentSet(SearchSettings settings, SearchContext context)

Uses of ExpressionExperimentSet in ubic.gemma.model.analysis.expression

Methods in ubic.gemma.model.analysis.expression that return ExpressionExperimentSet

Modifier and Type	Method	Description
static ExpressionExperimentSet	ExpressionExperimentSet.Factory.newInstance()

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

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

Modifier and Type	Method	Description
Collection<ExpressionExperimentSet>	ExpressionExperimentSetDao.find(ExpressionExperiment ee)
Collection<ExpressionExperimentSet>	ExpressionExperimentSetDaoImpl.find(ExpressionExperiment ee)
Collection<ExpressionExperimentSet>	ExpressionExperimentSetDao.findByAccession(String accession)
Collection<ExpressionExperimentSet>	ExpressionExperimentSetDao.findByAccession(String accession, ExternalDatabase externalDatabase)
Collection<ExpressionExperimentSet>	ExpressionExperimentSetDaoImpl.findByAccession(String accession)
Collection<ExpressionExperimentSet>	ExpressionExperimentSetDaoImpl.findByAccession(String accession, ExternalDatabase externalDatabase)
Collection<ExpressionExperimentSet>	ExpressionExperimentSetDao.findByName(String name)
Collection<ExpressionExperimentSet>	ExpressionExperimentSetDaoImpl.findByName(String name)
Collection<ExpressionExperimentSet>	ExpressionExperimentSetDao.loadAllExperimentSetsWithTaxon()
Collection<ExpressionExperimentSet>	ExpressionExperimentSetDaoImpl.loadAllExperimentSetsWithTaxon()

Methods in ubic.gemma.persistence.service.analysis.expression with parameters of type ExpressionExperimentSet

Modifier and Type	Method	Description
protected ExpressionExperimentSetValueObject	ExpressionExperimentSetDaoImpl.doLoadValueObject(ExpressionExperimentSet entity)
void	ExpressionExperimentSetDao.thaw(ExpressionExperimentSet expressionExperimentSet)
void	ExpressionExperimentSetDaoImpl.thaw(ExpressionExperimentSet expressionExperimentSet)

Method parameters in ubic.gemma.persistence.service.analysis.expression with type arguments of type ExpressionExperimentSet

Modifier and Type	Method	Description
List<ExpressionExperimentSetValueObject>	ExpressionExperimentSetDaoImpl.doLoadValueObjects(Collection<ExpressionExperimentSet> entities)

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

Methods in ubic.gemma.persistence.service.expression.experiment that return ExpressionExperimentSet

Modifier and Type	Method	Description
ExpressionExperimentSet	ExpressionExperimentSetValueObjectHelper.convertToEntity(ExpressionExperimentSetValueObject eesvo)
ExpressionExperimentSet	ExpressionExperimentSetValueObjectHelperImpl.convertToEntity(ExpressionExperimentSetValueObject setVO)	Tries to load an existing experiment set with the param's id, if no experiment can be loaded, create a new one with id = null.
ExpressionExperimentSet	ExpressionExperimentSetService.create(ExpressionExperimentSet expressionExperimentSet)
ExpressionExperimentSet	ExpressionExperimentSetValueObjectHelper.create(ExpressionExperimentSetValueObject eesvo)	Create an experiment set from a VO.
ExpressionExperimentSet	ExpressionExperimentSetValueObjectHelperImpl.create(ExpressionExperimentSetValueObject eesvo)
ExpressionExperimentSet	ExpressionExperimentSetService.initAutomaticallyGeneratedExperimentSet(Collection<ExpressionExperiment> expressionExperiments, Taxon taxon)
ExpressionExperimentSet	ExpressionExperimentSetServiceImpl.initAutomaticallyGeneratedExperimentSet(Collection<ExpressionExperiment> expressionExperiments, Taxon taxon)	Instantiate non-persistent experiment set with description = "Automatically generated for ## EEs.".
ExpressionExperimentSet	ExpressionExperimentSetService.load(Long id)
ExpressionExperimentSet	ExpressionExperimentSetService.thaw(ExpressionExperimentSet set)
ExpressionExperimentSet	ExpressionExperimentSetServiceImpl.thaw(ExpressionExperimentSet expressionExperimentSet)

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

Modifier and Type	Method	Description
Collection<ExpressionExperimentSet>	ExpressionExperimentSetService.find(ExpressionExperiment ee)
Collection<ExpressionExperimentSet>	ExpressionExperimentSetServiceImpl.find(ExpressionExperiment ee)
Collection<ExpressionExperimentSet>	ExpressionExperimentSetService.findByName(String name)	security at DAO level
Collection<ExpressionExperimentSet>	ExpressionExperimentSetServiceImpl.findByName(String name)
Collection<ExpressionExperimentSet>	ExpressionExperimentSetService.load(Collection<Long> ids)
Collection<ExpressionExperimentSet>	ExpressionExperimentSetService.loadAll()
Collection<ExpressionExperimentSet>	ExpressionExperimentSetService.loadAllExperimentSetsWithTaxon()	Security at DAO level.
Collection<ExpressionExperimentSet>	ExpressionExperimentSetServiceImpl.loadAllExperimentSetsWithTaxon()

Methods in ubic.gemma.persistence.service.expression.experiment with parameters of type ExpressionExperimentSet

Modifier and Type	Method	Description
ExpressionExperimentSet	ExpressionExperimentSetService.create(ExpressionExperimentSet expressionExperimentSet)
void	ExpressionExperimentSetService.remove(ExpressionExperimentSet expressionExperimentSet)
ExpressionExperimentSet	ExpressionExperimentSetService.thaw(ExpressionExperimentSet set)
ExpressionExperimentSet	ExpressionExperimentSetServiceImpl.thaw(ExpressionExperimentSet expressionExperimentSet)
void	ExpressionExperimentSetService.update(ExpressionExperimentSet expressionExperimentSet)
void	ExpressionExperimentSetServiceImpl.update(ExpressionExperimentSet expressionExperimentSet)

Method parameters in ubic.gemma.persistence.service.expression.experiment with type arguments of type ExpressionExperimentSet

Modifier and Type	Method	Description
void	ExpressionExperimentSetServiceImpl.update(Collection<ExpressionExperimentSet> entities)