Uses of Interface
jebl.evolution.align.PairwiseAligner
-
Packages that use PairwiseAligner Package Description jebl.evolution.align Provides classes and interfaces for pairwise alignment of two sequences. -
-
Uses of PairwiseAligner in jebl.evolution.align
Classes in jebl.evolution.align that implement PairwiseAligner Modifier and Type Class Description class
NeedlemanWunschLinearSpaceAffine
Methods in jebl.evolution.align with parameters of type PairwiseAligner Modifier and Type Method Description static AlignmentTreeBuilderFactory.Result
AlignmentTreeBuilderFactory. build(java.util.List<Sequence> seqs, TreeBuilderFactory.Method method, PairwiseAligner aligner, ProgressListener progressListener)
Will use model F84 for nucleotides and Jukes-Cantor for amino acidstatic AlignmentTreeBuilderFactory.Result
AlignmentTreeBuilderFactory. build(java.util.List<Sequence> seqs, TreeBuilderFactory.Method method, PairwiseAligner aligner, ProgressListener progressListener, TreeBuilderFactory.DistanceModel model)
Constructors in jebl.evolution.align with parameters of type PairwiseAligner Constructor Description SequenceAlignmentsDistanceMatrix(java.util.List<Sequence> seqs, PairwiseAligner aligner, ProgressListener progress)
SequenceAlignmentsDistanceMatrix(java.util.List<Sequence> seqs, PairwiseAligner aligner, ProgressListener progress, TreeBuilderFactory.DistanceModel model)
-