Uses of Class
com.milaboratory.core.alignment.AlignerCustom.LinearMatrixCache

Packages that use AlignerCustom.LinearMatrixCache

Package	Description
com.milaboratory.core.alignment

Uses of AlignerCustom.LinearMatrixCache in com.milaboratory.core.alignment

Methods in com.milaboratory.core.alignment with parameters of type AlignerCustom.LinearMatrixCache

Modifier and Type	Method and Description
static <S extends Sequence<S>> Alignment<S>	AlignerCustom.alignLinearSemiLocalLeft0(LinearGapAlignmentScoring<S> scoring, S seq1, S seq2, int offset1, int length1, int offset2, int length2, boolean boundSeq1, boolean boundSeq2, Alphabet<S> alphabet, AlignerCustom.LinearMatrixCache cache) Align two sequences from left to right; left edges of both sequences considered to be already aligned.
static <S extends Sequence<S>> Alignment<S>	AlignerCustom.alignLinearSemiLocalRight0(LinearGapAlignmentScoring<S> scoring, S seq1, S seq2, int offset1, int length1, int offset2, int length2, boolean boundSeq1, boolean boundSeq2, Alphabet<S> alphabet, AlignerCustom.LinearMatrixCache cache)