Package ubic.gemma.persistence.service.analysis.expression.pca

Class PrincipalComponentAnalysisServiceImpl

java.lang.Object

ubic.gemma.persistence.service.AbstractService<PrincipalComponentAnalysis>

ubic.gemma.persistence.service.analysis.expression.pca.PrincipalComponentAnalysisServiceImpl

All Implemented Interfaces:

PrincipalComponentAnalysisService, BaseImmutableService<PrincipalComponentAnalysis>, BaseReadOnlyService<PrincipalComponentAnalysis>, BaseService<PrincipalComponentAnalysis>

@Service
public class PrincipalComponentAnalysisServiceImpl
extends AbstractService<PrincipalComponentAnalysis>
implements PrincipalComponentAnalysisService

Author:

paul

Field Summary

Fields inherited from class ubic.gemma.persistence.service.AbstractService

log

Constructor Summary

Constructors

Constructor	Description
PrincipalComponentAnalysisServiceImpl(PrincipalComponentAnalysisDao principalComponentAnalysisDao)

Method Summary

Modifier and Type	Method	Description
PrincipalComponentAnalysis	create(ExpressionExperiment ee, DoubleMatrix<CompositeSequence,Integer> u, double[] eigenvalues, DoubleMatrix<Integer,BioMaterial> v, BioAssayDimension bad, int numComponentsToStore, int numLoadingsToStore)
List<ProbeLoading>	getTopLoadedProbes(ExpressionExperiment ee, int component, int count)
PrincipalComponentAnalysis	loadForExperiment(ExpressionExperiment ee)
void	removeForExperiment(ExpressionExperiment ee)

Methods inherited from class ubic.gemma.persistence.service.AbstractService

countAll, create, create, ensureInSession, ensureInSession, find, findOrCreate, findOrFail, getElementClass, load, load, loadAll, loadOrFail, loadOrFail, loadOrFail, loadOrFail, remove, remove, remove, save, save, update, update

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Methods inherited from interface ubic.gemma.persistence.service.BaseImmutableService

create, create, findOrCreate, remove, remove, remove

Methods inherited from interface ubic.gemma.persistence.service.BaseReadOnlyService

countAll, find, findOrFail, getElementClass, load, load, loadAll, loadOrFail, loadOrFail, loadOrFail, loadOrFail

Constructor Detail

PrincipalComponentAnalysisServiceImpl

@Autowired
public PrincipalComponentAnalysisServiceImpl(PrincipalComponentAnalysisDao principalComponentAnalysisDao)

Method Detail

create

@Transactional
public PrincipalComponentAnalysis create(ExpressionExperiment ee,
                                         DoubleMatrix<CompositeSequence,Integer> u,
                                         double[] eigenvalues,
                                         DoubleMatrix<Integer,BioMaterial> v,
                                         BioAssayDimension bad,
                                         int numComponentsToStore,
                                         int numLoadingsToStore)

Specified by:

create in interface PrincipalComponentAnalysisService

getTopLoadedProbes

@Transactional(readOnly=true)
public List<ProbeLoading> getTopLoadedProbes(ExpressionExperiment ee,
                                             int component,
                                             int count)

Specified by:

getTopLoadedProbes in interface PrincipalComponentAnalysisService

loadForExperiment

@Transactional(readOnly=true)
public PrincipalComponentAnalysis loadForExperiment(ExpressionExperiment ee)

Specified by:

loadForExperiment in interface PrincipalComponentAnalysisService

removeForExperiment

@Transactional
public void removeForExperiment(ExpressionExperiment ee)

Specified by:

removeForExperiment in interface PrincipalComponentAnalysisService