com.milaboratory.core.alignment.batch

Interface BatchAlignerWithBaseWithFilter<S extends Sequence<S>,P,H extends AlignmentHit<S,P>>

All Superinterfaces:

BatchAligner<S,H>, BatchAlignerWithBase<S,P,H>, WithBase<S,P>

All Known Implementing Classes:

KAligner, KAligner2

public interface BatchAlignerWithBaseWithFilter<S extends Sequence<S>,P,H extends AlignmentHit<S,P>>
extends BatchAlignerWithBase<S,P,H>

Method Summary

Methods

Modifier and Type	Method and Description
AlignmentResult<H>	align(S sequence, int from, int to, BitArray filter)
BitArray	createFilter(cc.redberry.primitives.Filter<P> filter)

Methods inherited from interface com.milaboratory.core.alignment.batch.BatchAligner

align, align

Methods inherited from interface com.milaboratory.core.alignment.batch.WithBase

addReference

Method Detail

createFilter

BitArray createFilter(cc.redberry.primitives.Filter<P> filter)

align

AlignmentResult<H> align(S sequence,
                       int from,
                       int to,
                       BitArray filter)