com.milaboratory.core.alignment.blast

Class NBlastAligner<P>

java.lang.Object

com.milaboratory.core.alignment.blast.BlastAlignerAbstract<NucleotideSequence,P,NBlastHit<P>>

com.milaboratory.core.alignment.blast.NBlastAligner<P>

All Implemented Interfaces:

PipedBatchAligner<NucleotideSequence,NBlastHit<P>>, PipedBatchAlignerWithBase<NucleotideSequence,P,NBlastHit<P>>, WithBase<NucleotideSequence,P>

public class NBlastAligner<P>
extends BlastAlignerAbstract<NucleotideSequence,P,NBlastHit<P>>

Constructor Summary

Constructors

Constructor and Description
NBlastAligner()
NBlastAligner(BlastAlignerParameters parameters)

Method Summary

Methods

Modifier and Type	Method and Description
protected NBlastHit<P>	createHit(Alignment<NucleotideSequence> alignment, P recordPayload, BlastHit<NucleotideSequence,?> hit)

Methods inherited from class com.milaboratory.core.alignment.blast.BlastAlignerAbstract

addReference, align, align, setConcurrentBlastProcessCount

Methods inherited from class java.lang.Object

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

Constructor Detail

NBlastAligner

public NBlastAligner()

NBlastAligner

public NBlastAligner(BlastAlignerParameters parameters)

Method Detail

createHit

protected NBlastHit<P> createHit(Alignment<NucleotideSequence> alignment,
                     P recordPayload,
                     BlastHit<NucleotideSequence,?> hit)

Specified by:

createHit in class BlastAlignerAbstract<NucleotideSequence,P,NBlastHit<P>>