Package ubic.gemma.model.genome.gene.phenotype.valueObject

Class DiffExpressionEvidenceValueObject

java.lang.Object

ubic.gemma.model.IdentifiableValueObject<E>

ubic.gemma.model.genome.gene.phenotype.valueObject.EvidenceValueObject<DifferentialExpressionEvidence>

ubic.gemma.model.genome.gene.phenotype.valueObject.DiffExpressionEvidenceValueObject

All Implemented Interfaces:

Serializable, Comparable<EvidenceValueObject<DifferentialExpressionEvidence>>, Identifiable

public class DiffExpressionEvidenceValueObject
extends EvidenceValueObject<DifferentialExpressionEvidence>

Author:

stgeorgn

See Also:

Serialized Form

Field Summary

Fields inherited from class ubic.gemma.model.IdentifiableValueObject

id

Constructor Summary

Constructors

Constructor	Description
DiffExpressionEvidenceValueObject()	Required when using the class as a spring bean.
DiffExpressionEvidenceValueObject(Long id)
DiffExpressionEvidenceValueObject(Long id, GeneDifferentialExpressionMetaAnalysis geneDifferentialExpressionMetaAnalysis, GeneDifferentialExpressionMetaAnalysisResult geneDifferentialExpressionMetaAnalysisResult, SortedSet<CharacteristicValueObject> phenotypes, String evidenceCode, Double selectionThreshold)
DiffExpressionEvidenceValueObject(DifferentialExpressionEvidence differentialExpressionEvidence, GeneDifferentialExpressionMetaAnalysisSummaryValueObject geneDifferentialExpressionMetaAnalysisSummaryValueObject)

Method Summary

Modifier and Type	Method	Description
boolean	equals(Object obj)
Long	getGeneDifferentialExpressionMetaAnalysisId()
Long	getGeneDifferentialExpressionMetaAnalysisResultId()
GeneDifferentialExpressionMetaAnalysisSummaryValueObject	getGeneDifferentialExpressionMetaAnalysisSummaryValueObject()
Double	getMeanLogFoldChange()
Double	getMetaPvalue()
Double	getMetaPvalueRank()
Double	getMetaQvalue()
Long	getNumEvidenceFromSameMetaAnalysis()
Double	getSelectionThreshold()
Boolean	getUpperTail()
int	hashCode()
void	setGeneDifferentialExpressionMetaAnalysisId(Long geneDifferentialExpressionMetaAnalysisId)
void	setGeneDifferentialExpressionMetaAnalysisResultId(Long geneDifferentialExpressionMetaAnalysisResultId)
void	setGeneDifferentialExpressionMetaAnalysisSummaryValueObject(GeneDifferentialExpressionMetaAnalysisSummaryValueObject geneDifferentialExpressionMetaAnalysisSummaryValueObject)
void	setMeanLogFoldChange(Double meanLogFoldChange)
void	setMetaPvalue(Double metaPvalue)
void	setMetaPvalueRank(Double metaPvalueRank)
void	setMetaQvalue(Double metaQvalue)
void	setNumEvidenceFromSameMetaAnalysis(Long numEvidenceFromSameMetaAnalysis)
void	setSelectionThreshold(Double selectionThreshold)
void	setUpperTail(Boolean upperTail)

Methods inherited from class ubic.gemma.model.genome.gene.phenotype.valueObject.EvidenceValueObject

compareTo, findPhenotypeMappingAsEnum, getClassName, getDescription, getEvidenceCode, getEvidenceSecurityValueObject, getEvidenceSource, getExternalUrl, getGeneId, getGeneNCBI, getGeneOfficialName, getGeneOfficialSymbol, getIsNegativeEvidence, getLastUpdated, getOriginalPhenotype, getPhenotypeAssPubVO, getPhenotypeMapping, getPhenotypes, getPhenotypesValueUri, getRelationship, getScoreValueObject, getTaxonCommonName, isContainQueryPhenotype, isHomologueEvidence, setClassName, setContainQueryPhenotype, setDescription, setEvidenceCode, setEvidenceSecurityValueObject, setEvidenceSource, setGeneId, setGeneNCBI, setGeneOfficialName, setGeneOfficialSymbol, setHomologueEvidence, setIsNegativeEvidence, setLastUpdated, setOriginalPhenotype, setPhenotypeAssPubVO, setPhenotypeMapping, setPhenotypes, setRelationship, setScoreValueObject, setTaxonCommonName, toString

Methods inherited from class ubic.gemma.model.IdentifiableValueObject

getId, setId

Methods inherited from class java.lang.Object

clone, finalize, getClass, notify, notifyAll, wait, wait, wait

Constructor Detail

DiffExpressionEvidenceValueObject

public DiffExpressionEvidenceValueObject()

Required when using the class as a spring bean.

DiffExpressionEvidenceValueObject

public DiffExpressionEvidenceValueObject(Long id)

DiffExpressionEvidenceValueObject

public DiffExpressionEvidenceValueObject(DifferentialExpressionEvidence differentialExpressionEvidence,
                                         GeneDifferentialExpressionMetaAnalysisSummaryValueObject geneDifferentialExpressionMetaAnalysisSummaryValueObject)

DiffExpressionEvidenceValueObject

public DiffExpressionEvidenceValueObject(Long id,
                                         GeneDifferentialExpressionMetaAnalysis geneDifferentialExpressionMetaAnalysis,
                                         GeneDifferentialExpressionMetaAnalysisResult geneDifferentialExpressionMetaAnalysisResult,
                                         SortedSet<CharacteristicValueObject> phenotypes,
                                         String evidenceCode,
                                         Double selectionThreshold)

Method Detail

equals

public boolean equals(Object obj)

Overrides:

equals in class EvidenceValueObject<DifferentialExpressionEvidence>

hashCode

public int hashCode()

Overrides:

hashCode in class EvidenceValueObject<DifferentialExpressionEvidence>

getGeneDifferentialExpressionMetaAnalysisId

public Long getGeneDifferentialExpressionMetaAnalysisId()

setGeneDifferentialExpressionMetaAnalysisId

public void setGeneDifferentialExpressionMetaAnalysisId(Long geneDifferentialExpressionMetaAnalysisId)

getGeneDifferentialExpressionMetaAnalysisResultId

public Long getGeneDifferentialExpressionMetaAnalysisResultId()

setGeneDifferentialExpressionMetaAnalysisResultId

public void setGeneDifferentialExpressionMetaAnalysisResultId(Long geneDifferentialExpressionMetaAnalysisResultId)

getGeneDifferentialExpressionMetaAnalysisSummaryValueObject

public GeneDifferentialExpressionMetaAnalysisSummaryValueObject getGeneDifferentialExpressionMetaAnalysisSummaryValueObject()

setGeneDifferentialExpressionMetaAnalysisSummaryValueObject

public void setGeneDifferentialExpressionMetaAnalysisSummaryValueObject(GeneDifferentialExpressionMetaAnalysisSummaryValueObject geneDifferentialExpressionMetaAnalysisSummaryValueObject)

getMeanLogFoldChange

public Double getMeanLogFoldChange()

setMeanLogFoldChange

public void setMeanLogFoldChange(Double meanLogFoldChange)

getMetaPvalue

public Double getMetaPvalue()

setMetaPvalue

public void setMetaPvalue(Double metaPvalue)

getMetaPvalueRank

public Double getMetaPvalueRank()

setMetaPvalueRank

public void setMetaPvalueRank(Double metaPvalueRank)

getMetaQvalue

public Double getMetaQvalue()

setMetaQvalue

public void setMetaQvalue(Double metaQvalue)

getNumEvidenceFromSameMetaAnalysis

public Long getNumEvidenceFromSameMetaAnalysis()

setNumEvidenceFromSameMetaAnalysis

public void setNumEvidenceFromSameMetaAnalysis(Long numEvidenceFromSameMetaAnalysis)

getSelectionThreshold

public Double getSelectionThreshold()

setSelectionThreshold

public void setSelectionThreshold(Double selectionThreshold)

getUpperTail

public Boolean getUpperTail()

setUpperTail

public void setUpperTail(Boolean upperTail)