Uses of Class
com.milaboratory.core.alignment.kaligner1.KAlignmentHit

Packages that use KAlignmentHit

Package	Description
com.milaboratory.core.alignment.kaligner1

Uses of KAlignmentHit in com.milaboratory.core.alignment.kaligner1

Methods in com.milaboratory.core.alignment.kaligner1 that return KAlignmentHit

Modifier and Type	Method and Description
KAlignmentHit	KAlignmentResult.getBestHit() Returns best hit (hit with highest alignment or mapper (if lazy alignment is used) score) or null if there is no hits in this result

Methods in com.milaboratory.core.alignment.kaligner1 that return types with arguments of type KAlignmentHit

Modifier and Type	Method and Description
AlignmentResult<KAlignmentHit<P>>	KAligner.align(NucleotideSequence sequence, int from, int to, BitArray filter)
List<KAlignmentHit<P>>	KAlignmentResult.getHits() Returns list of hits found in target sequence
Iterator<KAlignmentHit<P>>	KAlignmentResult.iterator()

Methods in com.milaboratory.core.alignment.kaligner1 with parameters of type KAlignmentHit

Modifier and Type	Method and Description
static void	KAlignmentHit.printHitAlignment(KAlignmentHit hit)