ubic.gemma.persistence.service.analysis

Interface AnalysisService<T extends Analysis>

All Known Subinterfaces:

CoexpressionAnalysisService, DifferentialExpressionAnalysisService, GeneDiffExMetaAnalysisService, SingleExperimentAnalysisService<T>

All Known Implementing Classes:

CoexpressionAnalysisServiceImpl, DifferentialExpressionAnalysisServiceImpl, GeneDiffExMetaAnalysisServiceImpl

public interface AnalysisService<T extends Analysis>

Provides basic services for dealing with analyses

Author:

Gemma

Method Summary

Modifier and Type	Method and Description
Collection<T>	findByName(String name)
Collection<T>	findByTaxon(Taxon taxon)
Collection<Long>	getExperimentsWithAnalysis(Collection<Long> idsToFilter) Not secured: for internal use only
Collection<Long>	getExperimentsWithAnalysis(Taxon taxon) Not secured: for internal use only
T	load(Long id)
Collection<T>	loadAll()
void	remove(T toDelete)

Method Detail

remove

@Secured(value={"GROUP_USER","ACL_ANALYSIS_EDIT"})
void remove(T toDelete)

Parameters:

toDelete - deletes the given analysis from the system

findByName

@Secured(value={"IS_AUTHENTICATED_ANONYMOUSLY","AFTER_ACL_COLLECTION_READ"})
Collection<T> findByName(String name)

findByTaxon

@Secured(value={"IS_AUTHENTICATED_ANONYMOUSLY","AFTER_ACL_COLLECTION_READ"})
Collection<T> findByTaxon(Taxon taxon)

getExperimentsWithAnalysis

Collection<Long> getExperimentsWithAnalysis(Collection<Long> idsToFilter)

Not secured: for internal use only

Parameters:

idsToFilter - starting list of bioassayset ids.

Returns:

the ones which have a coexpression analysis.

getExperimentsWithAnalysis

Collection<Long> getExperimentsWithAnalysis(Taxon taxon)

Not secured: for internal use only

Parameters:

taxon - taxon

Returns:

ids of bioassaysets from the given taxon that have a coexpression analysis

load

@Secured(value={"IS_AUTHENTICATED_ANONYMOUSLY","AFTER_ACL_READ"})
T load(Long id)

Parameters:

id - id

Returns:

the analysis with the specified ID

loadAll

@Secured(value={"IS_AUTHENTICATED_ANONYMOUSLY","AFTER_ACL_COLLECTION_READ"})
Collection<T> loadAll()

Returns:

all of the analysis objects