phyloXML ( example ) is an XML language designed to describe phylogenetic trees (or networks) and associated data. PhyloXML provides elements for commonly used features, such as taxonomic information, gene names and identifiers, branch lengths, support values, and gene duplication and speciation events. Using these standardized elements allows interoperability between various applications and databases. Furthermore, both due to extensible nature of XML itself and the provision of <property> elements by phyl
2009.12.16:
1. Download the newest version of Archaeopteryx 2. Download an example phyloXML file: » apaf.xml (Apaf-1 gene family tree with domain architectures) or » bcl_2.xml (Bcl-2 gene family tree with gene duplications, support values, and taxonomy data) 3. Click on the file "forester.jar" to start Archaeopteryx; and use "File"|"Read tree from file..." to load (e.g.) "bcl_2.xml" or "apaf.xml".