EQTL (genetica-libraries 1.0.5 API)

java.lang.Object
- umcg.genetica.io.trityper.EQTL

All Implemented Interfaces:: Comparable<EQTL>

public class EQTL
extends Object
implements Comparable<EQTL>

Author:: harmjan

Constructor Summary

Constructors
Constructor and Description

EQTL()

Constructors
Constructor and Description
`EQTL()`

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method and Description
`void`	`clearData()`
`String`	`compare(EQTL test)`
`int`	`compareTo(EQTL o)`
`int`	`compareToVerbose(EQTL o)`
`boolean`	`equals(EQTL o)`
`boolean`	`equals(Object obj)`
`String`	`getAlleleAssessed()`
`String`	`getAlleles()`
`String`	`getBeta()`
`Double[]`	`getCorrelations()`
`String[]`	`getDatasets()`
`Integer[]`	`getDatasetsSamples()`
`Double[]`	`getDatasetZScores()`
`String`	`getDiff(EQTL o)`
`String`	`getFC()`
`Double`	`getFDR()`
`String`	`getMetaBeta()`
`String`	`getProbe()`
`Byte`	`getProbeChr()`
`Integer`	`getProbeChrPos()`
`String`	`getProbeHUGO()`
`Double[]`	`getProbeMeans()`
`Double[]`	`getProbeVariance()`
`Double`	`getPvalue()`
`Double`	`getPvalueAbs()`
`Byte`	`getRsChr()`
`Integer`	`getRsChrPos()`
`String`	`getRsName()`
`String`	`getType()`
`boolean`	`getUseAbsoluteZScore()`
`double`	`getZscore()`
`Double`	`getZscoreAbs()`
`int`	`hashCode()`
`boolean`	`sameQTL(EQTL o)`
`void`	`setAlleleAssessed(String alleleAssessed)`
`void`	`setAlleles(String alleles)`
`void`	`setBeta(String string)`
`void`	`setCorrelations(Double[] correlations)`
`void`	`setDatasets(String[] datasets)`
`void`	`setDatasetsSamples(Integer[] datasetsSamples)`
`void`	`setDatasetZScores(Double[] datasetZScores)`
`void`	`setFC(String string)`
`void`	`setFDR(double d)`
`void`	`setMetaBeta(String string)`
`void`	`setProbe(String probe)`
`void`	`setProbeChr(byte probeChr)`
`void`	`setProbeChrPos(int probeChrPos)`
`void`	`setProbeHUGO(String probeHUGO)`
`void`	`setProbeMeans(Double[] probeMeans)`
`void`	`setProbeVariance(Double[] probeVariance)`
`void`	`setPvalue(double pvalue)`
`void`	`setPvalueAbs(double pValueOverallAbs)`
`void`	`setRsChr(byte rsChr)`
`void`	`setRsChrPos(int rsChrPos)`
`void`	`setRsName(String rsName)`
`void`	`setType(String type)`
`void`	`setUseAbsoluteZScore()`
`void`	`setZscore(double zscore)`
`void`	`setZscoreAbs(double zScoreAbs)`
`String`	`toString()`

Methods inherited from class java.lang.Object
clone, finalize, getClass, notify, notifyAll, wait, wait, wait

Constructor Detail
- EQTL
```
public EQTL()
```

Method Detail

getPvalue
```
public Double getPvalue()
```
Returns:

the pvalue

setPvalue
```
public void setPvalue(double pvalue)
```
Parameters:

pvalue - the pvalue to set

getRsName
```
public String getRsName()
```
Returns:

the rsName

setRsName
```
public void setRsName(String rsName)
```
Parameters:

rsName - the rsName to set

getRsChr
```
public Byte getRsChr()
```
Returns:

the rsChr

setRsChr
```
public void setRsChr(byte rsChr)
```
Parameters:

rsChr - the rsChr to set

getRsChrPos
```
public Integer getRsChrPos()
```
Returns:

the rsChrPos

setRsChrPos
```
public void setRsChrPos(int rsChrPos)
```
Parameters:

rsChrPos - the rsChrPos to set

getProbe
```
public String getProbe()
```
Returns:

the probe

setProbe
```
public void setProbe(String probe)
```
Parameters:

probe - the probe to set

getProbeChr
```
public Byte getProbeChr()
```
Returns:

the probeChr

setProbeChr
```
public void setProbeChr(byte probeChr)
```
Parameters:

probeChr - the probeChr to set

getProbeChrPos
```
public Integer getProbeChrPos()
```
Returns:

the probeChrPos

setProbeChrPos
```
public void setProbeChrPos(int probeChrPos)
```
Parameters:

probeChrPos - the probeChrPos to set

getType
```
public String getType()
```
Returns:

the type

setType
```
public void setType(String type)
```
Parameters:

type - the type to set

getAlleles
```
public String getAlleles()
```
Returns:

the alleles

setAlleles
```
public void setAlleles(String alleles)
```
Parameters:

alleles - the alleles to set

getAlleleAssessed
```
public String getAlleleAssessed()
```
Returns:

the alleleAssessed

setAlleleAssessed
```
public void setAlleleAssessed(String alleleAssessed)
```
Parameters:

alleleAssessed - the alleleAssessed to set

getDatasets
```
public String[] getDatasets()
```
Returns:

the datasets

setDatasets
```
public void setDatasets(String[] datasets)
```
Parameters:

datasets - the datasets to set

getZscore
```
public double getZscore()
```
Returns:

the zscore

setZscore
```
public void setZscore(double zscore)
```
Parameters:

zscore - the zscore to set

getDatasetZScores
```
public Double[] getDatasetZScores()
```
Returns:

the datasetZScores

setDatasetZScores
```
public void setDatasetZScores(Double[] datasetZScores)
```
Parameters:

datasetZScores - the datasetZScores to set

getDatasetsSamples
```
public Integer[] getDatasetsSamples()
```
Returns:

the datasetsSamples

setDatasetsSamples
```
public void setDatasetsSamples(Integer[] datasetsSamples)
```
Parameters:

datasetsSamples - the datasetsSamples to set

getProbeMeans
```
public Double[] getProbeMeans()
```
Returns:

the probeMeans

setProbeMeans
```
public void setProbeMeans(Double[] probeMeans)
```
Parameters:

probeMeans - the probeMeans to set

getProbeVariance
```
public Double[] getProbeVariance()
```
Returns:

the probeVariance

setProbeVariance
```
public void setProbeVariance(Double[] probeVariance)
```
Parameters:

probeVariance - the probeVariance to set

getProbeHUGO
```
public String getProbeHUGO()
```
Returns:

the probeHUGO

setProbeHUGO
```
public void setProbeHUGO(String probeHUGO)
```
Parameters:

probeHUGO - the probeHUGO to set

getCorrelations
```
public Double[] getCorrelations()
```
Returns:

the correlations

setCorrelations
```
public void setCorrelations(Double[] correlations)
```
Parameters:

correlations - the correlations to set

setFDR
```
public void setFDR(double d)
```

getFDR
```
public Double getFDR()
```

compare
```
public String compare(EQTL test)
```

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

compareTo
```
public int compareTo(EQTL o)
```
Specified by:

compareTo in interface Comparable<EQTL>

compareToVerbose
```
public int compareToVerbose(EQTL o)
```

equals
```
public boolean equals(EQTL o)
```

sameQTL
```
public boolean sameQTL(EQTL o)
```

setMetaBeta

public void setMetaBeta(String string)

setBeta
```
public void setBeta(String string)
```

setFC
```
public void setFC(String string)
```

getMetaBeta
```
public String getMetaBeta()
```

getBeta
```
public String getBeta()
```

getFC
```
public String getFC()
```

clearData
```
public void clearData()
```

setZscoreAbs

public void setZscoreAbs(double zScoreAbs)

setPvalueAbs

public void setPvalueAbs(double pValueOverallAbs)

getZscoreAbs
```
public Double getZscoreAbs()
```

getPvalueAbs
```
public Double getPvalueAbs()
```

setUseAbsoluteZScore
```
public void setUseAbsoluteZScore()
```

getUseAbsoluteZScore
```
public boolean getUseAbsoluteZScore()
```

getDiff
```
public String getDiff(EQTL o)
```

Class EQTL

Constructor Summary

Method Summary

Methods inherited from class java.lang.Object

Constructor Detail

EQTL

Method Detail

getPvalue

setPvalue

getRsName

setRsName

getRsChr

setRsChr

getRsChrPos

setRsChrPos

getProbe

setProbe

getProbeChr

setProbeChr

getProbeChrPos

setProbeChrPos

getType

setType

getAlleles

setAlleles

getAlleleAssessed

setAlleleAssessed

getDatasets

setDatasets

getZscore

setZscore

getDatasetZScores

setDatasetZScores

getDatasetsSamples

setDatasetsSamples

getProbeMeans

setProbeMeans

getProbeVariance

setProbeVariance

getProbeHUGO

setProbeHUGO

getCorrelations

setCorrelations

setFDR

getFDR

compare

hashCode

equals

toString

compareTo

compareToVerbose

equals

sameQTL

setMetaBeta

setBeta

setFC

getMetaBeta

getBeta

getFC

clearData

setZscoreAbs

setPvalueAbs

getZscoreAbs

getPvalueAbs

setUseAbsoluteZScore

getUseAbsoluteZScore

getDiff