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Bioinformatics Vol. 19 no. 12 2003
Pages 1572-1574
© 2003 Oxford University Press


Applications Note

MrBayes 3: Bayesian phylogenetic inference under mixed models

Fredrik Ronquist 1,* and John P. Huelsenbeck 2

1 Department of Systematic Zoology, Evolutionary Biology Centre, Uppsala University, Norbyv. 18D, SE-752 36 Uppsala, Sweden
2 Section of Ecology, Behavior and Evolution, Division of Biological Sciences, University of California, San Diego, La Jolla, CA 92093-0116, USA

Received on December 20, 2002 ; revised on February 14, 2003 ; accepted on February 19, 2003

Summary: MrBayes 3 performs Bayesian phylogenetic analysis combining information from different data partitions or subsets evolving under different stochastic evolutionary models. This allows the user to analyze heterogeneous data sets consisting of different data types—e.g. morphological, nucleotide, and protein—and to explore a wide variety of structured models mixing partition-unique and shared parameters. The program employs MPI to parallelize Metropolis coupling on Macintosh or UNIX clusters.

Availability: http://morphbank.ebc.uu.se/mrbayes

Contact: fredrik.ronquist{at}ebc.uu.se

* To whom correspondence should be addressed.


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