PhyloBayes 3

PhyloBayes 3: a Bayesian software package for phylogenetic reconstruction and molecular dating. MOTIVATION: 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.


References in zbMATH (referenced in 3 articles , 1 standard article )

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  1. Hannaford, Naomi E.; Heaps, Sarah E.; Nye, Tom M. W.; Williams, Tom A.; Embley, T. Martin: Incorporating compositional heterogeneity into Lie Markov models for phylogenetic inference (2020)
  2. Keith, Jonathan M. (ed.): Bioinformatics. Volume I. Data, sequence analysis, and evolution (2017)
  3. Lartillot, Nicolas; Lepage, Thomas; Blanquart, Samuel: Phylobayes 3: a Bayesian software package for phylogenetic reconstruction and molecular dating (2009) ioport