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    Download forester JAR 1.038 with all dependencies


    Applications and software libraries for evolutionary biology and comparative genomics research

    Files of the artifact forester version 1.038 from the group org.biojava.thirdparty.

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    Download forester (1.038)
    Artifact forester
    Group org.biojava.thirdparty
    Version 1.038
    Last update 14. January 2016
    Organization not specified
    URL Not specified
    License not specified
    Dependencies amount 2
    Dependencies commons-codec, openchart,
    There are maybe transitive dependencies!
    There is a newer version: 1.039
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    Source code of forester version 1.038

    META-INF
    META-INF.META-INF.MANIFEST.MF
    org.forester.analysis
    org.forester.analysis.org.forester.analysis.AncestralTaxonomyInference
    org.forester.analysis.org.forester.analysis.AncestralTaxonomyInferenceException
    org.forester.analysis.org.forester.analysis.TaxonomyDataManager
    org.forester.application
    org.forester.application.org.forester.application.annotator
    org.forester.application.org.forester.application.check_fasta
    org.forester.application.org.forester.application.confadd
    org.forester.application.org.forester.application.count_support
    org.forester.application.org.forester.application.decorator
    org.forester.application.org.forester.application.decoratorX
    org.forester.application.org.forester.application.dom_dup
    org.forester.application.org.forester.application.fasta_split
    org.forester.application.org.forester.application.gene_tree_preprocess
    org.forester.application.org.forester.application.goac
    org.forester.application.org.forester.application.gsdi
    org.forester.application.org.forester.application.mcc
    org.forester.application.org.forester.application.meta_ontologizer
    org.forester.application.org.forester.application.msa_compactor
    org.forester.application.org.forester.application.nj
    org.forester.application.org.forester.application.obo_tool
    org.forester.application.org.forester.application.pccx
    org.forester.application.org.forester.application.pfam2go_extractor
    org.forester.application.org.forester.application.pfam_go
    org.forester.application.org.forester.application.pfamacc2go
    org.forester.application.org.forester.application.pfamacc2pfamid
    org.forester.application.org.forester.application.phylostrip
    org.forester.application.org.forester.application.phyloxml_converter
    org.forester.application.org.forester.application.rio
    org.forester.application.org.forester.application.support_statistics
    org.forester.application.org.forester.application.support_transfer
    org.forester.application.org.forester.application.surfacing
    org.forester.application.org.forester.application.table2fasta
    org.forester.applications
    org.forester.applications.org.forester.applications.aa
    org.forester.applications.org.forester.applications.aaa
    org.forester.applications.org.forester.applications.appearance_vs_count.class
    org.forester.applications.org.forester.applications.core_chars.class
    org.forester.applications.org.forester.applications.core_chars
    org.forester.applications.org.forester.applications.domainloss_replacement.class
    org.forester.applications.org.forester.applications.domainloss_replacement
    org.forester.applications.org.forester.applications.genome_counts_for_once_appearing_dcs.class
    org.forester.applications.org.forester.applications.genome_counts_for_once_appearing_dcs
    org.forester.applications.org.forester.applications.get_distances
    org.forester.applications.org.forester.applications.get_genome_counts_per_char.class
    org.forester.applications.org.forester.applications.get_genome_counts_per_char
    org.forester.applications.org.forester.applications.get_loss_nodes.class
    org.forester.applications.org.forester.applications.get_loss_nodes
    org.forester.applications.org.forester.applications.get_shared_chars.class
    org.forester.applications.org.forester.applications.get_shared_chars
    org.forester.applications.org.forester.applications.get_subtree_specific_chars.class
    org.forester.applications.org.forester.applications.get_subtree_specific_chars
    org.forester.applications.org.forester.applications.inverted_dcs.class
    org.forester.applications.org.forester.applications.inverted_dcs
    org.forester.applications.org.forester.applications.map_lengths
    org.forester.applications.org.forester.applications.phylo2coloredgraphics
    org.forester.applications.org.forester.applications.phylo2graphics
    org.forester.applications.org.forester.applications.reinv_count.class
    org.forester.applications.org.forester.applications.reinv_count
    org.forester.applications.org.forester.applications.set_comparator.class
    org.forester.applications.org.forester.applications.set_comparator
    org.forester.applications.org.forester.applications.shared_chars_in_ext_nodes.class
    org.forester.applications.org.forester.applications.shared_chars_in_ext_nodes
    org.forester.applications.org.forester.applications.simple_node_processor.class
    org.forester.applications.org.forester.applications.simple_node_processor
    org.forester.applications.org.forester.applications.subtree_feature_count.class
    org.forester.applications.org.forester.applications.subtree_feature_count
    org.forester.applications.org.forester.applications.tax_code_cleaner.class
    org.forester.applications.org.forester.applications.tax_code_cleaner
    org.forester.applications.org.forester.applications.wiki_examples
    org.forester.archaeopteryx
    org.forester.archaeopteryx.org.forester.archaeopteryx.AptxUtil
    org.forester.archaeopteryx.org.forester.archaeopteryx.Archaeopteryx
    org.forester.archaeopteryx.org.forester.archaeopteryx.ArchaeopteryxA
    org.forester.archaeopteryx.org.forester.archaeopteryx.ArchaeopteryxE
    org.forester.archaeopteryx.org.forester.archaeopteryx.ColorSchemeChooser
    org.forester.archaeopteryx.org.forester.archaeopteryx.Configuration
    org.forester.archaeopteryx.org.forester.archaeopteryx.Constants
    org.forester.archaeopteryx.org.forester.archaeopteryx.ControlPanel
    org.forester.archaeopteryx.org.forester.archaeopteryx.FontChooser
    org.forester.archaeopteryx.org.forester.archaeopteryx.MainFrame
    org.forester.archaeopteryx.org.forester.archaeopteryx.MainFrameApplet
    org.forester.archaeopteryx.org.forester.archaeopteryx.MainFrameApplication
    org.forester.archaeopteryx.org.forester.archaeopteryx.MainPanel
    org.forester.archaeopteryx.org.forester.archaeopteryx.MainPanelApplets
    org.forester.archaeopteryx.org.forester.archaeopteryx.MouseListener
    org.forester.archaeopteryx.org.forester.archaeopteryx.NodeEditPanel
    org.forester.archaeopteryx.org.forester.archaeopteryx.NodeFrame
    org.forester.archaeopteryx.org.forester.archaeopteryx.NodePanel
    org.forester.archaeopteryx.org.forester.archaeopteryx.Options
    org.forester.archaeopteryx.org.forester.archaeopteryx.PdfExporter
    org.forester.archaeopteryx.org.forester.archaeopteryx.Printer
    org.forester.archaeopteryx.org.forester.archaeopteryx.TextFrame
    org.forester.archaeopteryx.org.forester.archaeopteryx.TreeColorSet
    org.forester.archaeopteryx.org.forester.archaeopteryx.TreeFontSet
    org.forester.archaeopteryx.org.forester.archaeopteryx.TreePanel
    org.forester.archaeopteryx.org.forester.archaeopteryx.TreePanelUtil
    org.forester.archaeopteryx.org.forester.archaeopteryx.UrlTreeReader
    org.forester.archaeopteryx.phylogeny.data
    org.forester.archaeopteryx.phylogeny.data.org.forester.archaeopteryx.phylogeny.data.RenderableDomainArchitecture
    org.forester.archaeopteryx.phylogeny.data.org.forester.archaeopteryx.phylogeny.data.RenderableMsaSequence
    org.forester.archaeopteryx.phylogeny.data.org.forester.archaeopteryx.phylogeny.data.RenderablePhylogenyData
    org.forester.archaeopteryx.phylogeny.data.org.forester.archaeopteryx.phylogeny.data.RenderableVector
    org.forester.archaeopteryx.tools
    org.forester.archaeopteryx.tools.org.forester.archaeopteryx.tools.AncestralTaxonomyInferrer
    org.forester.archaeopteryx.tools.org.forester.archaeopteryx.tools.Blast
    org.forester.archaeopteryx.tools.org.forester.archaeopteryx.tools.ImageLoader
    org.forester.archaeopteryx.tools.org.forester.archaeopteryx.tools.InferenceManager
    org.forester.archaeopteryx.tools.org.forester.archaeopteryx.tools.PhyloInferenceDialog
    org.forester.archaeopteryx.tools.org.forester.archaeopteryx.tools.PhylogeneticInferenceOptions
    org.forester.archaeopteryx.tools.org.forester.archaeopteryx.tools.PhylogeneticInferrer
    org.forester.archaeopteryx.tools.org.forester.archaeopteryx.tools.ProcessPool
    org.forester.archaeopteryx.tools.org.forester.archaeopteryx.tools.ProcessRunning
    org.forester.archaeopteryx.tools.org.forester.archaeopteryx.tools.RunnableProcess
    org.forester.archaeopteryx.tools.org.forester.archaeopteryx.tools.SequenceDataRetriver
    org.forester.archaeopteryx.webservices
    org.forester.archaeopteryx.webservices.org.forester.archaeopteryx.webservices.BasicPhylogeniesWebserviceClient
    org.forester.archaeopteryx.webservices.org.forester.archaeopteryx.webservices.PhylogeniesWebserviceClient
    org.forester.archaeopteryx.webservices.org.forester.archaeopteryx.webservices.WebserviceUtil
    org.forester.archaeopteryx.webservices.org.forester.archaeopteryx.webservices.WebservicesManager
    org.forester.datastructures
    org.forester.datastructures.org.forester.datastructures.IntMatrix
    org.forester.datastructures.org.forester.datastructures.Queue
    org.forester.development
    org.forester.development.org.forester.development.AbstractRenderer
    org.forester.development.org.forester.development.DevelopmentTools
    org.forester.development.org.forester.development.Hello3d
    org.forester.development.org.forester.development.HmmerRest
    org.forester.development.org.forester.development.MsaRenderer
    org.forester.development.org.forester.development.RandomThing
    org.forester.development.org.forester.development.ResidueRenderer
    org.forester.development.org.forester.development.Test
    org.forester.development.org.forester.development.Time
    org.forester.development.org.forester.development.neTest
    org.forester.evoinference
    org.forester.evoinference.org.forester.evoinference.TestPhylogenyReconstruction
    org.forester.evoinference.distance
    org.forester.evoinference.distance.org.forester.evoinference.distance.NeighborJoining
    org.forester.evoinference.distance.org.forester.evoinference.distance.NeighborJoiningF
    org.forester.evoinference.distance.org.forester.evoinference.distance.NeighborJoiningR
    org.forester.evoinference.distance.org.forester.evoinference.distance.PairwiseDistanceCalculator
    org.forester.evoinference.distance.org.forester.evoinference.distance.Sarray
    org.forester.evoinference.distance.org.forester.evoinference.distance.Sset
    org.forester.evoinference.matrix.character
    org.forester.evoinference.matrix.character.org.forester.evoinference.matrix.character.BasicCharacterStateMatrix
    org.forester.evoinference.matrix.character.org.forester.evoinference.matrix.character.CharacterStateMatrix
    org.forester.evoinference.matrix.distance
    org.forester.evoinference.matrix.distance.org.forester.evoinference.matrix.distance.BasicSymmetricalDistanceMatrix
    org.forester.evoinference.matrix.distance.org.forester.evoinference.matrix.distance.DistanceMatrix
    org.forester.evoinference.parsimony
    org.forester.evoinference.parsimony.org.forester.evoinference.parsimony.DolloParsimony
    org.forester.evoinference.parsimony.org.forester.evoinference.parsimony.FitchParsimony
    org.forester.evoinference.parsimony.org.forester.evoinference.parsimony.SankoffParsimony
    org.forester.evoinference.tools
    org.forester.evoinference.tools.org.forester.evoinference.tools.BootstrapResampler
    org.forester.go
    org.forester.go.org.forester.go.BasicGoRelationship
    org.forester.go.org.forester.go.BasicGoSubset
    org.forester.go.org.forester.go.BasicGoTerm
    org.forester.go.org.forester.go.BasicGoXRef
    org.forester.go.org.forester.go.GoId
    org.forester.go.org.forester.go.GoNameSpace
    org.forester.go.org.forester.go.GoRelationship
    org.forester.go.org.forester.go.GoSubset
    org.forester.go.org.forester.go.GoTerm
    org.forester.go.org.forester.go.GoUtils
    org.forester.go.org.forester.go.GoXRef
    org.forester.go.org.forester.go.Mapping
    org.forester.go.org.forester.go.OBOparser
    org.forester.go.org.forester.go.PfamToGoMapping
    org.forester.go.org.forester.go.PfamToGoParser
    org.forester.go.org.forester.go.TestGo
    org.forester.go.etc
    org.forester.go.etc.org.forester.go.etc.MetaOntologizer
    org.forester.go.etc.org.forester.go.etc.OntologizerResult
    org.forester.io.parsers
    org.forester.io.parsers.org.forester.io.parsers.FastaParser
    org.forester.io.parsers.org.forester.io.parsers.GeneralMsaParser
    org.forester.io.parsers.org.forester.io.parsers.HmmPfamOutputParser
    org.forester.io.parsers.org.forester.io.parsers.HmmscanPerDomainTableParser
    org.forester.io.parsers.org.forester.io.parsers.IteratingPhylogenyParser
    org.forester.io.parsers.org.forester.io.parsers.PhylogenyParser
    org.forester.io.parsers.org.forester.io.parsers.SymmetricalDistanceMatrixParser
    org.forester.io.parsers.nexus
    org.forester.io.parsers.nexus.org.forester.io.parsers.nexus.NexusBinaryStatesMatrixParser
    org.forester.io.parsers.nexus.org.forester.io.parsers.nexus.NexusCharactersParser
    org.forester.io.parsers.nexus.org.forester.io.parsers.nexus.NexusConstants
    org.forester.io.parsers.nexus.org.forester.io.parsers.nexus.NexusFormatException
    org.forester.io.parsers.nexus.org.forester.io.parsers.nexus.NexusPhylogeniesParser
    org.forester.io.parsers.nexus.org.forester.io.parsers.nexus.PaupLogParser
    org.forester.io.parsers.nhx
    org.forester.io.parsers.nhx.org.forester.io.parsers.nhx.NHXFormatException
    org.forester.io.parsers.nhx.org.forester.io.parsers.nhx.NHXParser
    org.forester.io.parsers.nhx.org.forester.io.parsers.nhx.NHXtags
    org.forester.io.parsers.phyloxml
    org.forester.io.parsers.phyloxml.org.forester.io.parsers.phyloxml.PhyloXmlDataFormatException
    org.forester.io.parsers.phyloxml.org.forester.io.parsers.phyloxml.PhyloXmlException
    org.forester.io.parsers.phyloxml.org.forester.io.parsers.phyloxml.PhyloXmlHandler
    org.forester.io.parsers.phyloxml.org.forester.io.parsers.phyloxml.PhyloXmlMapping
    org.forester.io.parsers.phyloxml.org.forester.io.parsers.phyloxml.PhyloXmlParser
    org.forester.io.parsers.phyloxml.org.forester.io.parsers.phyloxml.PhyloXmlUtil
    org.forester.io.parsers.phyloxml.org.forester.io.parsers.phyloxml.XmlElement
    org.forester.io.parsers.phyloxml.data
    org.forester.io.parsers.phyloxml.data.org.forester.io.parsers.phyloxml.data.AccessionParser
    org.forester.io.parsers.phyloxml.data.org.forester.io.parsers.phyloxml.data.AnnotationParser
    org.forester.io.parsers.phyloxml.data.org.forester.io.parsers.phyloxml.data.BinaryCharactersParser
    org.forester.io.parsers.phyloxml.data.org.forester.io.parsers.phyloxml.data.BranchWidthParser
    org.forester.io.parsers.phyloxml.data.org.forester.io.parsers.phyloxml.data.ColorParser
    org.forester.io.parsers.phyloxml.data.org.forester.io.parsers.phyloxml.data.ConfidenceParser
    org.forester.io.parsers.phyloxml.data.org.forester.io.parsers.phyloxml.data.DateParser
    org.forester.io.parsers.phyloxml.data.org.forester.io.parsers.phyloxml.data.DistributionParser
    org.forester.io.parsers.phyloxml.data.org.forester.io.parsers.phyloxml.data.DomainArchitectureParser
    org.forester.io.parsers.phyloxml.data.org.forester.io.parsers.phyloxml.data.EventParser
    org.forester.io.parsers.phyloxml.data.org.forester.io.parsers.phyloxml.data.IdentifierParser
    org.forester.io.parsers.phyloxml.data.org.forester.io.parsers.phyloxml.data.PhylogenyDataPhyloXmlParser
    org.forester.io.parsers.phyloxml.data.org.forester.io.parsers.phyloxml.data.PointParser
    org.forester.io.parsers.phyloxml.data.org.forester.io.parsers.phyloxml.data.PolygonParser
    org.forester.io.parsers.phyloxml.data.org.forester.io.parsers.phyloxml.data.PropertyParser
    org.forester.io.parsers.phyloxml.data.org.forester.io.parsers.phyloxml.data.ProteinDomainParser
    org.forester.io.parsers.phyloxml.data.org.forester.io.parsers.phyloxml.data.ReferenceParser
    org.forester.io.parsers.phyloxml.data.org.forester.io.parsers.phyloxml.data.SequenceParser
    org.forester.io.parsers.phyloxml.data.org.forester.io.parsers.phyloxml.data.SequenceRelationParser
    org.forester.io.parsers.phyloxml.data.org.forester.io.parsers.phyloxml.data.TaxonomyParser
    org.forester.io.parsers.phyloxml.data.org.forester.io.parsers.phyloxml.data.UriParser
    org.forester.io.parsers.tol
    org.forester.io.parsers.tol.org.forester.io.parsers.tol.TolParser
    org.forester.io.parsers.tol.org.forester.io.parsers.tol.TolXmlHandler
    org.forester.io.parsers.tol.org.forester.io.parsers.tol.TolXmlMapping
    org.forester.io.parsers.util
    org.forester.io.parsers.util.org.forester.io.parsers.util.ParserUtils
    org.forester.io.parsers.util.org.forester.io.parsers.util.PhylogenyParserException
    org.forester.io.writers
    org.forester.io.writers.org.forester.io.writers.PhyloXmlNodeWriter
    org.forester.io.writers.org.forester.io.writers.PhylogenyWriter
    org.forester.io.writers.org.forester.io.writers.SequenceWriter
    org.forester.msa
    org.forester.msa.org.forester.msa.BasicMsa
    org.forester.msa.org.forester.msa.ClustalOmega
    org.forester.msa.org.forester.msa.DeleteableMsa
    org.forester.msa.org.forester.msa.Mafft
    org.forester.msa.org.forester.msa.Msa
    org.forester.msa.org.forester.msa.MsaFormatException
    org.forester.msa.org.forester.msa.MsaInferrer
    org.forester.msa.org.forester.msa.MsaMethods
    org.forester.msa.org.forester.msa.ResampleableMsa
    org.forester.msa_compactor
    org.forester.msa_compactor.org.forester.msa_compactor.Chart
    org.forester.msa_compactor.org.forester.msa_compactor.GapContribution
    org.forester.msa_compactor.org.forester.msa_compactor.MsaCompactor
    org.forester.msa_compactor.org.forester.msa_compactor.MsaProperties
    org.forester.pccx
    org.forester.pccx.org.forester.pccx.BasicExternalNodeBasedCoverageExtender
    org.forester.pccx.org.forester.pccx.BranchCountingBasedScoringMethod
    org.forester.pccx.org.forester.pccx.BranchLengthBasedScoringMethod
    org.forester.pccx.org.forester.pccx.Coverage
    org.forester.pccx.org.forester.pccx.CoverageCalculationMethod
    org.forester.pccx.org.forester.pccx.CoverageCalculationOptions
    org.forester.pccx.org.forester.pccx.CoverageCalculator
    org.forester.pccx.org.forester.pccx.CoverageExtender
    org.forester.pccx.org.forester.pccx.ExternalNodeBasedCoverage
    org.forester.pccx.org.forester.pccx.ExternalNodeBasedCoverageMethod
    org.forester.pccx.org.forester.pccx.ExternalNodeBasedCoverageMethodOptions
    org.forester.pccx.org.forester.pccx.LogBranchLengthBasedScoringMethod
    org.forester.pccx.org.forester.pccx.ModelingUtils
    org.forester.pccx.org.forester.pccx.ScoringMethodForExternalNode
    org.forester.pccx.org.forester.pccx.TestPccx
    org.forester.phylogeny
    org.forester.phylogeny.org.forester.phylogeny.Phylogeny
    org.forester.phylogeny.org.forester.phylogeny.PhylogenyBranch
    org.forester.phylogeny.org.forester.phylogeny.PhylogenyMethods
    org.forester.phylogeny.org.forester.phylogeny.PhylogenyNode
    org.forester.phylogeny.data
    org.forester.phylogeny.data.org.forester.phylogeny.data.Accession
    org.forester.phylogeny.data.org.forester.phylogeny.data.Annotation
    org.forester.phylogeny.data.org.forester.phylogeny.data.BinaryCharacters
    org.forester.phylogeny.data.org.forester.phylogeny.data.BranchColor
    org.forester.phylogeny.data.org.forester.phylogeny.data.BranchData
    org.forester.phylogeny.data.org.forester.phylogeny.data.BranchWidth
    org.forester.phylogeny.data.org.forester.phylogeny.data.Confidence
    org.forester.phylogeny.data.org.forester.phylogeny.data.Date
    org.forester.phylogeny.data.org.forester.phylogeny.data.Distribution
    org.forester.phylogeny.data.org.forester.phylogeny.data.DomainArchitecture
    org.forester.phylogeny.data.org.forester.phylogeny.data.Event
    org.forester.phylogeny.data.org.forester.phylogeny.data.Identifier
    org.forester.phylogeny.data.org.forester.phylogeny.data.MultipleUris
    org.forester.phylogeny.data.org.forester.phylogeny.data.NodeData
    org.forester.phylogeny.data.org.forester.phylogeny.data.NodeDataField
    org.forester.phylogeny.data.org.forester.phylogeny.data.NodeVisualData
    org.forester.phylogeny.data.org.forester.phylogeny.data.PhylogenyData
    org.forester.phylogeny.data.org.forester.phylogeny.data.PhylogenyDataUtil
    org.forester.phylogeny.data.org.forester.phylogeny.data.Point
    org.forester.phylogeny.data.org.forester.phylogeny.data.Polygon
    org.forester.phylogeny.data.org.forester.phylogeny.data.PropertiesMap
    org.forester.phylogeny.data.org.forester.phylogeny.data.Property
    org.forester.phylogeny.data.org.forester.phylogeny.data.ProteinDomain
    org.forester.phylogeny.data.org.forester.phylogeny.data.Reference
    org.forester.phylogeny.data.org.forester.phylogeny.data.Sequence
    org.forester.phylogeny.data.org.forester.phylogeny.data.SequenceRelation
    org.forester.phylogeny.data.org.forester.phylogeny.data.Taxonomy
    org.forester.phylogeny.data.org.forester.phylogeny.data.Uri
    org.forester.phylogeny.factories
    org.forester.phylogeny.factories.org.forester.phylogeny.factories.ParserBasedPhylogenyFactory
    org.forester.phylogeny.factories.org.forester.phylogeny.factories.PhylogenyFactory
    org.forester.phylogeny.iterators
    org.forester.phylogeny.iterators.org.forester.phylogeny.iterators.ExternalForwardIterator
    org.forester.phylogeny.iterators.org.forester.phylogeny.iterators.LevelOrderTreeIterator
    org.forester.phylogeny.iterators.org.forester.phylogeny.iterators.PhylogenyNodeIterator
    org.forester.phylogeny.iterators.org.forester.phylogeny.iterators.PostOrderStackObject
    org.forester.phylogeny.iterators.org.forester.phylogeny.iterators.PostorderTreeIterator
    org.forester.phylogeny.iterators.org.forester.phylogeny.iterators.PreorderTreeIterator
    org.forester.protein
    org.forester.protein.org.forester.protein.BasicDomain
    org.forester.protein.org.forester.protein.BasicProtein
    org.forester.protein.org.forester.protein.BinaryDomainCombination
    org.forester.protein.org.forester.protein.Domain
    org.forester.protein.org.forester.protein.Protein
    org.forester.protein.org.forester.protein.ProteinId
    org.forester.rio
    org.forester.rio.org.forester.rio.RIO
    org.forester.rio.org.forester.rio.RIOException
    org.forester.rio.org.forester.rio.TestRIO
    org.forester.sdi
    org.forester.sdi.org.forester.sdi.GSDI
    org.forester.sdi.org.forester.sdi.GSDII
    org.forester.sdi.org.forester.sdi.GSDIR
    org.forester.sdi.org.forester.sdi.GSDIsummaryResult
    org.forester.sdi.org.forester.sdi.NodesLinkingResult
    org.forester.sdi.org.forester.sdi.SDI
    org.forester.sdi.org.forester.sdi.SDIException
    org.forester.sdi.org.forester.sdi.SDIR
    org.forester.sdi.org.forester.sdi.SDIutil
    org.forester.sdi.org.forester.sdi.TestGSDI
    org.forester.sequence
    org.forester.sequence.org.forester.sequence.BasicSequence
    org.forester.sequence.org.forester.sequence.MolecularSequence
    org.forester.species
    org.forester.species.org.forester.species.BasicSpecies
    org.forester.species.org.forester.species.Species
    org.forester.surfacing
    org.forester.surfacing.org.forester.surfacing.AdjactantDirectedBinaryDomainCombination
    org.forester.surfacing.org.forester.surfacing.AdjactantDirectedCombinableDomains
    org.forester.surfacing.org.forester.surfacing.BasicBinaryDomainCombination
    org.forester.surfacing.org.forester.surfacing.BasicCombinableDomains
    org.forester.surfacing.org.forester.surfacing.BasicDomainSimilarityCalculator
    org.forester.surfacing.org.forester.surfacing.BasicGenomeWideCombinableDomains
    org.forester.surfacing.org.forester.surfacing.CombinableDomains
    org.forester.surfacing.org.forester.surfacing.CombinationsBasedPairwiseDomainSimilarity
    org.forester.surfacing.org.forester.surfacing.CombinationsBasedPairwiseDomainSimilarityCalculator
    org.forester.surfacing.org.forester.surfacing.CountsBasedPairwiseDomainSimilarity
    org.forester.surfacing.org.forester.surfacing.DirectedBinaryDomainCombination
    org.forester.surfacing.org.forester.surfacing.DirectedCombinableDomains
    org.forester.surfacing.org.forester.surfacing.DomainArchitectureBasedGenomeSimilarityCalculator
    org.forester.surfacing.org.forester.surfacing.DomainCountsBasedPairwiseSimilarityCalculator
    org.forester.surfacing.org.forester.surfacing.DomainCountsDifferenceUtil
    org.forester.surfacing.org.forester.surfacing.DomainLengths
    org.forester.surfacing.org.forester.surfacing.DomainLengthsTable
    org.forester.surfacing.org.forester.surfacing.DomainParsimonyCalculator
    org.forester.surfacing.org.forester.surfacing.DomainSimilarity
    org.forester.surfacing.org.forester.surfacing.DomainSimilarityCalculator
    org.forester.surfacing.org.forester.surfacing.GenomeWideCombinableDomains
    org.forester.surfacing.org.forester.surfacing.MappingResults
    org.forester.surfacing.org.forester.surfacing.PairwiseDomainSimilarity
    org.forester.surfacing.org.forester.surfacing.PairwiseDomainSimilarityCalculator
    org.forester.surfacing.org.forester.surfacing.PairwiseGenomeComparator
    org.forester.surfacing.org.forester.surfacing.PrintableSpeciesSpecificDcData
    org.forester.surfacing.org.forester.surfacing.ProteinCountsBasedPairwiseDomainSimilarityCalculator
    org.forester.surfacing.org.forester.surfacing.SimpleDomain
    org.forester.surfacing.org.forester.surfacing.SpeciesSpecificDcData
    org.forester.surfacing.org.forester.surfacing.SurfacingConstants
    org.forester.surfacing.org.forester.surfacing.SurfacingUtil
    org.forester.surfacing.org.forester.surfacing.TestSurfacing
    org.forester.test
    org.forester.test.org.forester.test.Test
    org.forester.test.examples
    org.forester.test.examples.org.forester.test.examples.Example1
    org.forester.test.examples.org.forester.test.examples.Example2
    org.forester.test.examples.org.forester.test.examples.Example3
    org.forester.test.examples.org.forester.test.examples.Example4
    org.forester.test.examples.org.forester.test.examples.Example5
    org.forester.tools
    org.forester.tools.org.forester.tools.ConfidenceAssessor
    org.forester.tools.org.forester.tools.PhylogenyDecorator
    org.forester.tools.org.forester.tools.SupportCount
    org.forester.tools.org.forester.tools.TreeSplitMatrix
    org.forester.util
    org.forester.util.org.forester.util.AsciiHistogram
    org.forester.util.org.forester.util.BasicDescriptiveStatistics
    org.forester.util.org.forester.util.BasicTable
    org.forester.util.org.forester.util.BasicTableParser
    org.forester.util.org.forester.util.CommandLineArguments
    org.forester.util.org.forester.util.CommandProcessBuilder
    org.forester.util.org.forester.util.DescriptiveStatistics
    org.forester.util.org.forester.util.EasyWriter
    org.forester.util.org.forester.util.ExternalProgram
    org.forester.util.org.forester.util.FailedConditionCheckException
    org.forester.util.org.forester.util.ForesterConstants
    org.forester.util.org.forester.util.ForesterUtil
    org.forester.util.org.forester.util.GeneralTable
    org.forester.util.org.forester.util.IllegalFormatUseException
    org.forester.util.org.forester.util.SequenceAccessionTools
    org.forester.util.org.forester.util.StringInt
    org.forester.util.org.forester.util.SystemCommandExecutor
    org.forester.util.org.forester.util.TaxonomyColors
    org.forester.util.org.forester.util.TaxonomyGroups
    org.forester.util.org.forester.util.TaxonomyUtil
    org.forester.util.org.forester.util.ThreadedStreamHandler
    org.forester.util.org.forester.util.WindowsUtils
    org.forester.ws.hmmer
    org.forester.ws.hmmer.org.forester.ws.hmmer.Test
    org.forester.ws.seqdb
    org.forester.ws.seqdb.org.forester.ws.seqdb.EbiDbEntry
    org.forester.ws.seqdb.org.forester.ws.seqdb.SequenceDatabaseEntry
    org.forester.ws.seqdb.org.forester.ws.seqdb.SequenceDbWsTools
    org.forester.ws.seqdb.org.forester.ws.seqdb.UniProtEntry
    org.forester.ws.seqdb.org.forester.ws.seqdb.UniProtTaxonomy
    org.forester.ws.wabi
    org.forester.ws.wabi.org.forester.ws.wabi.RestUtil
    org.forester.ws.wabi.org.forester.ws.wabi.TxSearch
    org.forester.ws.wabi.org.forester.ws.wabi.WabiTools
    .phyloxml.xsd
    .synth_look_and_feel_1.xml




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