com.milaboratory.core.alignment.kaligner1

Class KMappingResult

java.lang.Object

com.milaboratory.core.alignment.kaligner1.KMappingResult

All Implemented Interfaces:

Serializable

public class KMappingResult
extends Object
implements Serializable

KMappingResult - class which is result of KMapper#align(com.milaboratory.core.sequence.nucleotide.NucleotideSequence, int, int), KMapper.align(com.milaboratory.core.sequence.NucleotideSequence) methods.

It contains seeds used for aligning by KMapper and list of hits found in target sequence.

See Also:

Serialized Form

Constructor Summary

Constructors

Constructor and Description
KMappingResult(IntArrayList seeds, List<KMappingHit> hits) Creates new KMappingResult

Method Summary

Methods

Modifier and Type	Method and Description
List<KMappingHit>	getHits()
int	getSeedPosition(int i)
int	getSeedsCount()

Methods inherited from class java.lang.Object

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

Constructor Detail

KMappingResult

public KMappingResult(IntArrayList seeds,
              List<KMappingHit> hits)

Creates new KMappingResult

Parameters:

seeds - seeds used for alignment

hits - hits obtained by KMapper

Method Detail

getSeedsCount

public int getSeedsCount()

getSeedPosition

public int getSeedPosition(int i)

getHits

public List<KMappingHit> getHits()