title: Bayesian phylogenetics with BEAUti and the BEAST 1.7.
abstract: Computational evolutionary biology, statistical phylogenetics and coalescent-based population genetics are becoming increasingly central to the analysis and understanding of molecular sequence data. We present the Bayesian Evolutionary Analysis by Sampling Trees (BEAST) software package version 1.7, which implements a family of Markov chain Monte Carlo (MCMC) algorithms for Bayesian phylogenetic inference, divergence time dating, coalescent analysis, phylogeography and related molecular evolutionary analyses. This package includes an enhanced graphical user interface program called Bayesian Evolutionary Analysis Utility (BEAUti) that enables access to advanced models for molecular sequence and phenotypic trait evolution that were previously available to developers only. The package also provides new tools for visualizing and summarizing multispecies coalescent and phylogeographic analyses. BEAUti and BEAST 1.7 are open source under the GNU lesser general public license and available at http://beast-mcmc.googlecode.com and http://beast.bio.ed.ac.uk.
authors.affiliation: Department of Computer Science, University of Auckland, Auckland, New Zealand. alexei@cs.auckland.ac.nz
authors.forename: Alexei J
authors.initials: AJ
authors.lastname: Drummond
authors.forename: Marc A
authors.initials: MA
authors.lastname: Suchard
authors.forename: Dong
authors.initials: D
authors.lastname: Xie
authors.forename: Andrew
authors.initials: A
authors.lastname: Rambaut
mesh_terms: D000818:Animals; D001483:Base Sequence; D001499:Bayes Theorem; D019295:Computational Biology / Q000379:methods*; D004272:DNA, Mitochondrial / Q000235:genetics; D046369:Finches / Q000235:genetics; D008969:Molecular Sequence Data; D010641:Phenotype; D010802:Phylogeny; D012984:Software; D014584:User-Computer Interface
chemical_list: D004272:DNA, Mitochondrial