Package org.broadinstitute.hellbender.tools.walkers.rnaseq

Class OverhangFixingManager.SplitRead

java.lang.Object

org.broadinstitute.hellbender.tools.walkers.rnaseq.OverhangFixingManager.SplitRead

Enclosing class:

OverhangFixingManager

public final class OverhangFixingManager.SplitRead
extends Object

Field Summary

Fields

Modifier and Type	Field	Description
GATKRead	read
GenomeLoc	unclippedLoc

Constructor Summary

Constructors

Constructor	Description
SplitRead(GATKRead read)

Method Summary

Modifier and Type	Method	Description
boolean	hasBeenOverhangClipped()
void	setMateChanged()
void	setRead(GATKRead read)

Methods inherited from class java.lang.Object

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

Field Details

read

public GATKRead read

unclippedLoc

public GenomeLoc unclippedLoc

Constructor Details

SplitRead

public SplitRead(GATKRead read)

Method Details

setRead

public void setRead(GATKRead read)

hasBeenOverhangClipped

public boolean hasBeenOverhangClipped()

setMateChanged

public void setMateChanged()