uk.ac.sanger.npg.picard
Class AlignmentFilterMetric.SQ

java.lang.Object
  uk.ac.sanger.npg.picard.AlignmentFilterMetric.SQ

Enclosing class:

AlignmentFilterMetric

public static class AlignmentFilterMetric.SQ
extends java.lang.Object

SQ record in SAM header

Constructor Summary

AlignmentFilterMetric.SQ(net.sf.samtools.SAMSequenceRecord samSequenceRecord)

AlignmentFilterMetric.SQ(java.lang.String sn, java.lang.String as, java.lang.String sp, int ln, java.lang.String ur)

Method Summary

java.lang.String	getAs()
int	getLn()
java.lang.String	getSn()
java.lang.String	getSp()
java.lang.String	getUr()
void	setAs(java.lang.String as)
void	setLn(int ln)
void	setSn(java.lang.String sn)
void	setSp(java.lang.String sp)
void	setUr(java.lang.String ur)

Methods inherited from class java.lang.Object

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

Constructor Detail

AlignmentFilterMetric.SQ

public AlignmentFilterMetric.SQ(java.lang.String sn,
                                java.lang.String as,
                                java.lang.String sp,
                                int ln,
                                java.lang.String ur)

Parameters:

sn -

as -

sp -

ln -

ur -

m5 -

AlignmentFilterMetric.SQ

public AlignmentFilterMetric.SQ(net.sf.samtools.SAMSequenceRecord samSequenceRecord)

Method Detail

getSn

public java.lang.String getSn()

Returns:

the sn

setSn

public void setSn(java.lang.String sn)

Parameters:

sn - the sn to set

getAs

public java.lang.String getAs()

Returns:

the as

setAs

public void setAs(java.lang.String as)

Parameters:

as - the as to set

getSp

public java.lang.String getSp()

Returns:

the sp

setSp

public void setSp(java.lang.String sp)

Parameters:

sp - the sp to set

getLn

public int getLn()

Returns:

the ln

setLn

public void setLn(int ln)

Parameters:

ln - the ln to set

getUr

public java.lang.String getUr()

Returns:

the ur

setUr

public void setUr(java.lang.String ur)

Parameters:

ur - the ur to set