title: Datamonkey 2010: a suite of phylogenetic analysis tools for evolutionary biology.
abstract: Datamonkey is a popular web-based suite of phylogenetic analysis tools for use in evolutionary biology. Since the original release in 2005, we have expanded the analysis options to include recently developed algorithmic methods for recombination detection, evolutionary fingerprinting of genes, codon model selection, co-evolution between sites, identification of sites, which rapidly escape host-immune pressure and HIV-1 subtype assignment. The traditional selection tools have also been augmented to include recent developments in the field. Here, we summarize the analyses options currently available on Datamonkey, and provide guidelines for their use in evolutionary biology. Availability and documentation: http://www.datamonkey.org.
authors.affiliation: Department of Pathology, Antiviral Research Center, University of California, San Diego, CA, USA.
authors.forename: Wayne
authors.initials: W
authors.lastname: Delport
authors.forename: Art F Y
authors.initials: AF
authors.lastname: Poon
authors.forename: Simon D W
authors.initials: SD
authors.lastname: Frost
authors.forename: Sergei L
authors.initials: SL
authors.lastname: Kosakovsky Pond
mesh_terms: D000465:Algorithms; D019295:Computational Biology / Q000379:methods*; D019143:Evolution, Molecular; D015497:HIV-1 / Q000235:genetics; D020407:Internet; D010802:Phylogeny; D012984:Software