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Download biojava-alignment JAR 7.1.3 with all dependencies

Files of the artifact biojava-alignment version 7.1.3 from the group org.biojava.

Artifact biojava-alignment
Group org.biojava
Version 7.1.3
Last update 06. September 2024
Tags: facilitate providing statistical formats data analytical parsers rapid project source sequences java file common provides manipulation allows dedicated development goal structures framework application biojava bioinformatics processing biological routines open
Organization not specified
URL http://www.biojava.org
License GNU LGPL v2
Dependencies amount 6
Dependencies biojava-core, forester, slf4j-api, log4j-slf4j2-impl, log4j-api, log4j-core,
There are maybe transitive dependencies!

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Source code of biojava-alignment version 7.1.3

META-INF

META-INF.META-INF.MANIFEST.MF

META-INF.maven.org.biojava.biojava-alignment

META-INF.maven.org.biojava.biojava-alignment.META-INF.maven.org.biojava.biojava-alignment.pom.properties

META-INF.maven.org.biojava.biojava-alignment.META-INF.maven.org.biojava.biojava-alignment.pom.xml

.PF00104_small.fasta

demo

demo.demo.CookbookMSA

demo.demo.DemoAlignProteins

demo.demo.DemoDistanceTree

demo.demo.DemoLoadSubstMax

demo.demo.TestDNANeedlemanWunsch

org.biojava.nbio.alignment

org.biojava.nbio.alignment.org.biojava.nbio.alignment.Alignments

org.biojava.nbio.alignment.org.biojava.nbio.alignment.FractionalIdentityInProfileScorer

org.biojava.nbio.alignment.org.biojava.nbio.alignment.FractionalIdentityScorer

org.biojava.nbio.alignment.org.biojava.nbio.alignment.FractionalSimilarityInProfileScorer

org.biojava.nbio.alignment.org.biojava.nbio.alignment.FractionalSimilarityScorer

org.biojava.nbio.alignment.org.biojava.nbio.alignment.GuideTree

org.biojava.nbio.alignment.org.biojava.nbio.alignment.NeedlemanWunsch

org.biojava.nbio.alignment.org.biojava.nbio.alignment.SimpleGapPenalty

org.biojava.nbio.alignment.org.biojava.nbio.alignment.SimpleProfileProfileAligner

org.biojava.nbio.alignment.org.biojava.nbio.alignment.SmithWaterman

org.biojava.nbio.alignment.org.biojava.nbio.alignment.StandardRescoreRefiner

org.biojava.nbio.alignment.org.biojava.nbio.alignment.SubstitutionMatrixScorer

org.biojava.nbio.alignment.io

org.biojava.nbio.alignment.io.org.biojava.nbio.alignment.io.StockholmConsensusAnnotation

org.biojava.nbio.alignment.io.org.biojava.nbio.alignment.io.StockholmFileAnnotation

org.biojava.nbio.alignment.io.org.biojava.nbio.alignment.io.StockholmFileParser

org.biojava.nbio.alignment.io.org.biojava.nbio.alignment.io.StockholmResidueAnnotation

org.biojava.nbio.alignment.io.org.biojava.nbio.alignment.io.StockholmSequenceAnnotation

org.biojava.nbio.alignment.io.org.biojava.nbio.alignment.io.StockholmStructure

org.biojava.nbio.alignment.routines

org.biojava.nbio.alignment.routines.org.biojava.nbio.alignment.routines.AlignerHelper

org.biojava.nbio.alignment.routines.org.biojava.nbio.alignment.routines.AnchoredPairwiseSequenceAligner

org.biojava.nbio.alignment.routines.org.biojava.nbio.alignment.routines.GuanUberbacher

org.biojava.nbio.alignment.template

org.biojava.nbio.alignment.template.org.biojava.nbio.alignment.template.AbstractMatrixAligner

org.biojava.nbio.alignment.template.org.biojava.nbio.alignment.template.AbstractPairwiseSequenceAligner

org.biojava.nbio.alignment.template.org.biojava.nbio.alignment.template.AbstractProfileProfileAligner

org.biojava.nbio.alignment.template.org.biojava.nbio.alignment.template.AbstractScorer

org.biojava.nbio.alignment.template.org.biojava.nbio.alignment.template.Aligner

org.biojava.nbio.alignment.template.org.biojava.nbio.alignment.template.CallablePairwiseSequenceAligner

org.biojava.nbio.alignment.template.org.biojava.nbio.alignment.template.CallablePairwiseSequenceScorer

org.biojava.nbio.alignment.template.org.biojava.nbio.alignment.template.CallableProfileProfileAligner

org.biojava.nbio.alignment.template.org.biojava.nbio.alignment.template.GapPenalty

org.biojava.nbio.alignment.template.org.biojava.nbio.alignment.template.GuideTreeNode

org.biojava.nbio.alignment.template.org.biojava.nbio.alignment.template.HierarchicalClusterer

org.biojava.nbio.alignment.template.org.biojava.nbio.alignment.template.MatrixAligner

org.biojava.nbio.alignment.template.org.biojava.nbio.alignment.template.PairInProfileScorer

org.biojava.nbio.alignment.template.org.biojava.nbio.alignment.template.PairwiseSequenceAligner

org.biojava.nbio.alignment.template.org.biojava.nbio.alignment.template.PairwiseSequenceScorer

org.biojava.nbio.alignment.template.org.biojava.nbio.alignment.template.PartitionRefiner

org.biojava.nbio.alignment.template.org.biojava.nbio.alignment.template.ProfileProfileAligner

org.biojava.nbio.alignment.template.org.biojava.nbio.alignment.template.ProfileProfileScorer

org.biojava.nbio.alignment.template.org.biojava.nbio.alignment.template.RescoreRefiner

org.biojava.nbio.alignment.template.org.biojava.nbio.alignment.template.Scorer

org.biojava.nbio.phylo

org.biojava.nbio.phylo.org.biojava.nbio.phylo.Comparison

org.biojava.nbio.phylo.org.biojava.nbio.phylo.DistanceMatrixCalculator

org.biojava.nbio.phylo.org.biojava.nbio.phylo.DistanceTreeEvaluator

org.biojava.nbio.phylo.org.biojava.nbio.phylo.ForesterWrapper

org.biojava.nbio.phylo.org.biojava.nbio.phylo.TreeConstructor

org.biojava.nbio.phylo.org.biojava.nbio.phylo.TreeConstructorType

org.biojava.nbio.phylo.org.biojava.nbio.phylo.TreeType

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