Package org.snpeff.stats

Class TranslocationReport

java.lang.Object

org.snpeff.stats.TranslocationReport

public class TranslocationReport
extends java.lang.Object

Pojo for translocation reports

Author:

pcingola

Constructor Summary

Constructors

Constructor	Description
TranslocationReport(VariantBnd var, VcfEffect veff, Transcript tr1, Transcript tr2)

Method Summary

Modifier and Type	Method	Description
java.lang.String	getChr1()
java.lang.String	getChr2()
java.lang.String	getGeneName1()
java.lang.String	getGeneName2()
java.lang.String	getHgvsC()
java.lang.String	getHgvsP()
java.lang.String	getImpact()
java.lang.String	getIndex()
int	getPos1OneBased()	Get position (as one-based coordinates)
int	getPos2OneBased()	Get position (as one-based coordinates)
java.lang.String	getSvgPlot()
java.lang.String	getTrId1()
java.lang.String	getTrId2()
java.lang.String	getVariantEffect()
java.lang.String	getVcfEffect()
void	setSvgPlot(java.lang.String svgPlot)

Methods inherited from class java.lang.Object

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

Constructor Detail

TranslocationReport

public TranslocationReport(VariantBnd var,
                           VcfEffect veff,
                           Transcript tr1,
                           Transcript tr2)

Method Detail

getChr1

public java.lang.String getChr1()

getChr2

public java.lang.String getChr2()

getGeneName1

public java.lang.String getGeneName1()

getGeneName2

public java.lang.String getGeneName2()

getHgvsC

public java.lang.String getHgvsC()

getHgvsP

public java.lang.String getHgvsP()

getImpact

public java.lang.String getImpact()

getIndex

public java.lang.String getIndex()

getPos1OneBased

public int getPos1OneBased()

Get position (as one-based coordinates)

getPos2OneBased

public int getPos2OneBased()

Get position (as one-based coordinates)

getSvgPlot

public java.lang.String getSvgPlot()

getTrId1

public java.lang.String getTrId1()

getTrId2

public java.lang.String getTrId2()

getVariantEffect

public java.lang.String getVariantEffect()

getVcfEffect

public java.lang.String getVcfEffect()

setSvgPlot

public void setSvgPlot(java.lang.String svgPlot)