PhyloPhlAn

New microbial genomes are constantly being sequenced, and it is crucial to accurately determine their taxonomic identities and evolutionary relationships. Here we report PhyloPhlAn, a new method to assign microbial phylogeny and putative taxonomy using >400 proteins optimized from among 3,737 genomes. This method measures the sequence diversity of all clades, classifies genomes from deep-branching candidate divisions through closely related subspecies and improves consistency between phylogenetic and taxonomic groupings.

Software repository and supporting material

The software repository of PhyloPhlAn is at: https://bitbucket.org/nsegata/phylophlan/src
The supporting user group is at: https://groups.google.com/forum/#!forum/phylophlan-users
An introductory tutotial is available at: https://bitbucket.org/nsegata/phylophlan/wiki/Home
A Galaxy interface is at: http://huttenhower.sph.harvard.edu/galaxy/root?tool_id=graphlan
For comments and question please refer to the user group linked above or contact us

Citation

If you find the tool useful in your research, please cite our paper:

Nicola Segata Daniela Börnigen Xochitl C. Morgan Curtis Huttenhower

PhyloPhlAn is a new method for improved phylogenetic and taxonomic placement of microbes

Nature Communications, vol. 4, p. 2304, Jul. 2013 10.1038/ncomms3304