Archaeopteryx: visualise, analyse and edit phylogenetic trees Archaeopteryx is a software tool for the visualization, analysis, and editing of potentially large and highly annotated phylogenetic trees. Archaeopteryx (the successor to ATV) is entirely written in the Java programming language and is based on the forester libraries. Please cite: Han M.V. and Zmasek C.M. (2009) phyloXML: XML for evolutionary biology and comparative genomics BMC Bioinformatics, 10:356.