DifferentialExpressionValueObject (Gemma 1.29.8 API)

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 and Description
`DifferentialExpressionValueObject()`
`DifferentialExpressionValueObject(DifferentialExpressionAnalysisResult o)`
`DifferentialExpressionValueObject(Long id)`

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method and 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()
```

Class DifferentialExpressionValueObject

Constructor Summary

Method Summary

Methods inherited from class java.lang.Object

Constructor Detail

DifferentialExpressionValueObject

DifferentialExpressionValueObject

DifferentialExpressionValueObject

Method Detail

addContrast

getContrasts

setContrasts

getCorrP

setCorrP

getDirection

setDirection

getExperimentalFactors

setExperimentalFactors

getExpressionExperiment

setExpressionExperiment

getFisherContribution

setFisherContribution

getGene

setGene

getId

setId

getMetThreshold

setMetThreshold

getP

setP

getProbe

setProbe

getProbeId

setProbeId

getResultSetId

setResultSetId

getSortKey

hashCode

equals

toString

setSortKey