COPYING
lib/Bio/Phylo.pm
lib/Bio/Phylo/EvolutionaryModels.pm
lib/Bio/Phylo/Factory.pm
lib/Bio/Phylo/Forest.pm
lib/Bio/Phylo/Forest/DrawNodeRole.pm
lib/Bio/Phylo/Forest/DrawTreeRole.pm
lib/Bio/Phylo/Forest/Node.pm
lib/Bio/Phylo/Forest/NodeRole.pm
lib/Bio/Phylo/Forest/Tree.pm
lib/Bio/Phylo/Forest/TreeRole.pm
lib/Bio/Phylo/Generator.pm
lib/Bio/Phylo/Identifiable.pm
lib/Bio/Phylo/IO.pm
lib/Bio/Phylo/Listable.pm
lib/Bio/Phylo/ListableRole.pm
lib/Bio/Phylo/Manual.pod
lib/Bio/Phylo/Matrices.pm
lib/Bio/Phylo/Matrices/Character.pm
lib/Bio/Phylo/Matrices/Characters.pm
lib/Bio/Phylo/Matrices/Datatype.pm
lib/Bio/Phylo/Matrices/Datatype/Continuous.pm
lib/Bio/Phylo/Matrices/Datatype/Custom.pm
lib/Bio/Phylo/Matrices/Datatype/Dna.pm
lib/Bio/Phylo/Matrices/Datatype/Illumina.pm
lib/Bio/Phylo/Matrices/Datatype/Mixed.pm
lib/Bio/Phylo/Matrices/Datatype/Protein.pm
lib/Bio/Phylo/Matrices/Datatype/Restriction.pm
lib/Bio/Phylo/Matrices/Datatype/Rna.pm
lib/Bio/Phylo/Matrices/Datatype/Sanger.pm
lib/Bio/Phylo/Matrices/Datatype/Solexa.pm
lib/Bio/Phylo/Matrices/Datatype/Standard.pm
lib/Bio/Phylo/Matrices/Datum.pm
lib/Bio/Phylo/Matrices/DatumRole.pm
lib/Bio/Phylo/Matrices/Matrix.pm
lib/Bio/Phylo/Matrices/MatrixRole.pm
lib/Bio/Phylo/Matrices/TypeSafeData.pm
lib/Bio/Phylo/Mediators/TaxaMediator.pm
lib/Bio/Phylo/Models/Substitution/Binary.pm
lib/Bio/Phylo/Models/Substitution/Dna.pm
lib/Bio/Phylo/Models/Substitution/Dna/F81.pm
lib/Bio/Phylo/Models/Substitution/Dna/GTR.pm
lib/Bio/Phylo/Models/Substitution/Dna/HKY85.pm
lib/Bio/Phylo/Models/Substitution/Dna/JC69.pm
lib/Bio/Phylo/Models/Substitution/Dna/K80.pm
lib/Bio/Phylo/NeXML/DOM.pm
lib/Bio/Phylo/NeXML/DOM/Document.pm
lib/Bio/Phylo/NeXML/DOM/Document/Libxml.pm
lib/Bio/Phylo/NeXML/DOM/Document/Twig.pm
lib/Bio/Phylo/NeXML/DOM/Element.pm
lib/Bio/Phylo/NeXML/DOM/Element/Libxml.pm
lib/Bio/Phylo/NeXML/DOM/Element/Twig.pm
lib/Bio/Phylo/NeXML/Entities.pm
lib/Bio/Phylo/NeXML/Meta.pm
lib/Bio/Phylo/NeXML/Meta/XMLLiteral.pm
lib/Bio/Phylo/NeXML/Writable.pm
lib/Bio/Phylo/NeXML/XML2JSON.pm
lib/Bio/Phylo/Parsers/Abstract.pm
lib/Bio/Phylo/Parsers/Adjacency.pm
lib/Bio/Phylo/Parsers/Cdao.pm
lib/Bio/Phylo/Parsers/Dwca.pm
lib/Bio/Phylo/Parsers/Fasta.pm
lib/Bio/Phylo/Parsers/Fastq.pm
lib/Bio/Phylo/Parsers/Figtree.pm
lib/Bio/Phylo/Parsers/Json.pm
lib/Bio/Phylo/Parsers/Newick.pm
lib/Bio/Phylo/Parsers/Nexml.pm
lib/Bio/Phylo/Parsers/Nexus.pm
lib/Bio/Phylo/Parsers/Nhx.pm
lib/Bio/Phylo/Parsers/Phylip.pm
lib/Bio/Phylo/Parsers/Phyloxml.pm
lib/Bio/Phylo/Parsers/Table.pm
lib/Bio/Phylo/Parsers/Taxlist.pm
lib/Bio/Phylo/Parsers/Tnrs.pm
lib/Bio/Phylo/Parsers/Tolweb.pm
lib/Bio/Phylo/Parsers/Ubiocbmeta.pm
lib/Bio/Phylo/Parsers/Ubiometa.pm
lib/Bio/Phylo/Parsers/Ubiosearch.pm
lib/Bio/Phylo/PhyloWS.pm
lib/Bio/Phylo/PhyloWS/Client.pm
lib/Bio/Phylo/PhyloWS/Resource.pm
lib/Bio/Phylo/PhyloWS/Resource/Description.pm
lib/Bio/Phylo/PhyloWS/Service.pm
lib/Bio/Phylo/PhyloWS/Service/Timetree.pm
lib/Bio/Phylo/PhyloWS/Service/Tolweb.pm
lib/Bio/Phylo/PhyloWS/Service/UbioClassificationBank.pm
lib/Bio/Phylo/PhyloWS/Service/UbioNameBank.pm
lib/Bio/Phylo/Project.pm
lib/Bio/Phylo/Set.pm
lib/Bio/Phylo/Taxa.pm
lib/Bio/Phylo/Taxa/TaxaLinker.pm
lib/Bio/Phylo/Taxa/Taxon.pm
lib/Bio/Phylo/Taxa/TaxonLinker.pm
lib/Bio/Phylo/Treedrawer.pm
lib/Bio/Phylo/Treedrawer/Abstract.pm
lib/Bio/Phylo/Treedrawer/Canvas.pm
lib/Bio/Phylo/Treedrawer/Gif.pm
lib/Bio/Phylo/Treedrawer/Jpeg.pm
lib/Bio/Phylo/Treedrawer/Pdf.pm
lib/Bio/Phylo/Treedrawer/Png.pm
lib/Bio/Phylo/Treedrawer/Processing.pm
lib/Bio/Phylo/Treedrawer/Svg.pm
lib/Bio/Phylo/Treedrawer/Swf.pm
lib/Bio/Phylo/Unparsers/Abstract.pm
lib/Bio/Phylo/Unparsers/Adjacency.pm
lib/Bio/Phylo/Unparsers/Cdao.pm
lib/Bio/Phylo/Unparsers/Fasta.pm
lib/Bio/Phylo/Unparsers/Figtree.pm
lib/Bio/Phylo/Unparsers/Hennig86.pm
lib/Bio/Phylo/Unparsers/Html.pm
lib/Bio/Phylo/Unparsers/Json.pm
lib/Bio/Phylo/Unparsers/Mrp.pm
lib/Bio/Phylo/Unparsers/Newick.pm
lib/Bio/Phylo/Unparsers/Nexml.pm
lib/Bio/Phylo/Unparsers/Nexus.pm
lib/Bio/Phylo/Unparsers/Nhx.pm
lib/Bio/Phylo/Unparsers/Nwmsrdf.pm
lib/Bio/Phylo/Unparsers/Pagel.pm
lib/Bio/Phylo/Unparsers/Phylip.pm
lib/Bio/Phylo/Unparsers/Phyloxml.pm
lib/Bio/Phylo/Unparsers/Rss1.pm
lib/Bio/Phylo/Unparsers/Taxlist.pm
lib/Bio/Phylo/Util/CONSTANT.pm
lib/Bio/Phylo/Util/CONSTANT/Int.pm
lib/Bio/Phylo/Util/Dependency.pm
lib/Bio/Phylo/Util/Exceptions.pm
lib/Bio/Phylo/Util/IDPool.pm
lib/Bio/Phylo/Util/Logger.pm
lib/Bio/Phylo/Util/Math.pm
lib/Bio/Phylo/Util/MOP.pm
lib/Bio/Phylo/Util/OptionalInterface.pm
lib/Bio/Phylo/Util/StackTrace.pm
lib/Bio/PhyloRole.pm
LICENSE
Makefile.PL
MANIFEST			This list of files
README.md
t/00-load.t
t/01-phylo.t
t/02-newick.t
t/03-node.t
t/04-generator.t
t/05-trees.t
t/06-tree.t
t/07-unparse.t
t/08-datum.t
t/09-matrix.t
t/10-matrices.t
t/11-taxon.t
t/12-taxa.t
t/13-listable.t
t/14-nexus.t
t/15-table.t
t/16-unparse.t
t/17-parse.t
t/18-taxlist.t
t/19-svg.t
t/20-nexml.t
t/21-bioperl-tree.t
t/22-bioperl-node.t
t/23-bioperl-treeio.t
t/24-bioperl-alignio.t
t/25-dom-mapping.t
t/26-dom.t
t/28-reroot.t
t/29-treemodels.t
t/30-phyloxml.t
t/31-phylip.t
t/32-tolweb.t
t/33-models.t
t/34-json.t
t/35-processing.t
t/36-sets.t
t/37-memory.t
t/38-rdf.t
t/39-nexussets.t
t/40-hennig86.t
t/41-charstatelabels.t
t/42-simplify-newick.t
t/43-adjacency.t
t/44-tnrs.t
t/45-fastq.t
t/46-noformat.t
t/47-clone.t
t/48-drawnoderole.t
t/49-drawtreerole.t
t/50-replicate-tree.t
t/51-replicate-binary.t
t/52-replicate-dna.t
t/53-more-matrix.t
t/54-rankprob.t
t/55-modeltest.t
t/56-figtree.t
t/57-nhx.t
t/58-symdiff.t
t/59-yandell.t
t/60-dwca.t
t/perl-critic.t
t/perlcriticrc
t/pod-coverage.t
t/pod.t
t/regress_18208.t
t/regress_21209.t
t/regress_21417.t
t/regress_22813.t
t/regress_35511.t
t/regress_41070.t
t/regress_51602.t
t/regress_52960.t
META.yml                                 Module YAML meta-data (added by MakeMaker)
META.json                                Module JSON meta-data (added by MakeMaker)