Uses of Interface
jebl.evolution.align.PairwiseAligner
Packages that use PairwiseAligner
Package
Description
Provides classes and interfaces for pairwise alignment of two sequences.
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Uses of PairwiseAligner in jebl.evolution.align
Classes in jebl.evolution.align that implement PairwiseAlignerMethods in jebl.evolution.align with parameters of type PairwiseAlignerModifier and TypeMethodDescriptionAlignmentTreeBuilderFactory.build
(List<Sequence> seqs, TreeBuilderFactory.Method method, PairwiseAligner aligner, ProgressListener progressListener) Will use model F84 for nucleotides and Jukes-Cantor for amino acidAlignmentTreeBuilderFactory.build
(List<Sequence> seqs, TreeBuilderFactory.Method method, PairwiseAligner aligner, ProgressListener progressListener, TreeBuilderFactory.DistanceModel model) Constructors in jebl.evolution.align with parameters of type PairwiseAlignerModifierConstructorDescriptionSequenceAlignmentsDistanceMatrix
(List<Sequence> seqs, PairwiseAligner aligner, ProgressListener progress) SequenceAlignmentsDistanceMatrix
(List<Sequence> seqs, PairwiseAligner aligner, ProgressListener progress, TreeBuilderFactory.DistanceModel model)