com.milaboratory.core.alignment.kaligner1

Class KAlignmentHit<P>

java.lang.Object

com.milaboratory.core.alignment.kaligner1.KAlignmentHit<P>

All Implemented Interfaces:

AlignmentHit<NucleotideSequence,P>, Serializable

public final class KAlignmentHit<P>
extends Object
implements Serializable, AlignmentHit<NucleotideSequence,P>

KAlignmentHit - class which represents single hit for KAlignmentResult

See Also:

Serialized Form

Constructor Summary

Constructors

Constructor and Description
KAlignmentHit(KAlignmentResult<P> result, int index) Creates new KAlignmentHit

Method Summary

Methods

Modifier and Type	Method and Description
void	calculateAlignment()
Alignment<NucleotideSequence>	getAlignment()
NucleotideSequence	getHitSequence()
int	getId()
KMappingHit	getKMersHit()
P	getRecordPayload()
KAlignmentResult	getResult()
static void	printHitAlignment(KAlignmentHit hit)

Methods inherited from class java.lang.Object

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

Constructor Detail

KAlignmentHit

public KAlignmentHit(KAlignmentResult<P> result,
             int index)

Creates new KAlignmentHit

Parameters:

result -

index -

Method Detail

getRecordPayload

public P getRecordPayload()

Specified by:

getRecordPayload in interface AlignmentHit<NucleotideSequence,P>

getId

public int getId()

calculateAlignment

public void calculateAlignment()

getKMersHit

public KMappingHit getKMersHit()

getAlignment

public Alignment<NucleotideSequence> getAlignment()

Specified by:

getAlignment in interface AlignmentHit<NucleotideSequence,P>

getResult

public KAlignmentResult getResult()

getHitSequence

public NucleotideSequence getHitSequence()

printHitAlignment

public static void printHitAlignment(KAlignmentHit hit)