Package ubic.gemma.model.analysis.expression.diff

Class DifferentialExpressionValueObject

java.lang.Object

ubic.gemma.model.analysis.expression.diff.DifferentialExpressionValueObject

All Implemented Interfaces:

Serializable

public class DifferentialExpressionValueObject
extends Object
implements Serializable

Represents the results for one probe. Fairly heavy-weight.

Author:

keshav

See Also:

Serialized Form

Constructor Summary

Constructors

Constructor	Description
DifferentialExpressionValueObject()
DifferentialExpressionValueObject(Long id)
DifferentialExpressionValueObject(DifferentialExpressionAnalysisResult o)

Method Summary

Modifier and Type	Method	Description
void	addContrast(Long cid, Long factorValueId, Double pvalue, Double logFoldChange, Long secondFactorValueId)
boolean	equals(Object obj)
ContrastsValueObject	getContrasts()
Double	getCorrP()
Direction	getDirection()
Collection<ExperimentalFactorValueObject>	getExperimentalFactors()
ExpressionExperimentValueObject	getExpressionExperiment()
Boolean	getFisherContribution()
GeneValueObject	getGene()
Long	getId()
Boolean	getMetThreshold()
Double	getP()
String	getProbe()
Long	getProbeId()
Long	getResultSetId()
String	getSortKey()
int	hashCode()
void	setContrasts(ContrastsValueObject contrasts)
void	setCorrP(Double corrP)
void	setDirection(Direction direction)
void	setExperimentalFactors(Collection<ExperimentalFactorValueObject> experimentalFactors)
void	setExpressionExperiment(ExpressionExperimentValueObject expressionExperiment)
void	setFisherContribution(Boolean fisherContribution)
void	setGene(GeneValueObject gene)
void	setId(Long id)
void	setMetThreshold(Boolean metThreshold)
void	setP(Double p)
void	setProbe(String probe)
void	setProbeId(Long probeId)
void	setResultSetId(Long long1)
void	setSortKey()
String	toString()

Methods inherited from class java.lang.Object

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

Constructor Detail

DifferentialExpressionValueObject

public DifferentialExpressionValueObject()

DifferentialExpressionValueObject

public DifferentialExpressionValueObject(DifferentialExpressionAnalysisResult o)

DifferentialExpressionValueObject

public DifferentialExpressionValueObject(Long id)

Method Detail

addContrast

public void addContrast(Long cid,
                        Long factorValueId,
                        Double pvalue,
                        Double logFoldChange,
                        Long secondFactorValueId)

Parameters:

cid - id of the contrast

secondFactorValueId - null unless this is an interaction

pvalue - the p value

factorValueId - factor value id

logFoldChange - the fold change

getContrasts

public ContrastsValueObject getContrasts()

setContrasts

public void setContrasts(ContrastsValueObject contrasts)

getCorrP

public Double getCorrP()

setCorrP

public void setCorrP(Double corrP)

getDirection

public Direction getDirection()

setDirection

public void setDirection(Direction direction)

getExperimentalFactors

public Collection<ExperimentalFactorValueObject> getExperimentalFactors()

setExperimentalFactors

public void setExperimentalFactors(Collection<ExperimentalFactorValueObject> experimentalFactors)

getExpressionExperiment

public ExpressionExperimentValueObject getExpressionExperiment()

setExpressionExperiment

public void setExpressionExperiment(ExpressionExperimentValueObject expressionExperiment)

getFisherContribution

public Boolean getFisherContribution()

setFisherContribution

public void setFisherContribution(Boolean fisherContribution)

getGene

public GeneValueObject getGene()

setGene

public void setGene(GeneValueObject gene)

getId

public Long getId()

setId

public void setId(Long id)

getMetThreshold

public Boolean getMetThreshold()

setMetThreshold

public void setMetThreshold(Boolean metThreshold)

getP

public Double getP()

setP

public void setP(Double p)

getProbe

public String getProbe()

setProbe

public void setProbe(String probe)

getProbeId

public Long getProbeId()

setProbeId

public void setProbeId(Long probeId)

getResultSetId

public Long getResultSetId()

setResultSetId

public void setResultSetId(Long long1)

getSortKey

public String getSortKey()

hashCode

public int hashCode()

Overrides:

hashCode in class Object

equals

public boolean equals(Object obj)

Overrides:

equals in class Object

toString

public String toString()

Overrides:

toString in class Object

setSortKey

public void setSortKey()