title: PhyloBayes 3: a Bayesian software package for phylogenetic reconstruction and molecular dating.
abstract: BACKGROUND
  A variety of probabilistic models describing the evolution of DNA or protein sequences have been proposed for phylogenetic reconstruction or for molecular dating. However, there still lacks a common implementation allowing one to freely combine these independent features, so as to test their ability to jointly improve phylogenetic and dating accuracy.
  
  
  RESULTS
  We propose a software package, PhyloBayes 3, which can be used for conducting Bayesian phylogenetic reconstruction and molecular dating analyses, using a large variety of amino acid replacement and nucleotide substitution models, including empirical mixtures or non-parametric models, as well as alternative clock relaxation processes.
authors.affiliation: Département de Biochimie, Université de Montréal, Montréal, Québec, Canada. nicolas.lartillot@umontreal.ca
authors.forename: Nicolas
authors.initials: N
authors.lastname: Lartillot
authors.forename: Thomas
authors.initials: T
authors.lastname: Lepage
authors.forename: Samuel
authors.initials: S
authors.lastname: Blanquart
mesh_terms: D000818:Animals; D001499:Bayes Theorem; D019295:Computational Biology / Q000379:methods*; D030561:Databases, Nucleic Acid; D010802:Phylogeny; D011237:Predictive Value of Tests; D015203:Reproducibility of Results; D012984:Software; D013997:Time Factors