PhyloBayes 3: a Bayesian software package for phylogenetic reconstruction and molecular dating
- PMID: 19535536
- DOI: 10.1093/bioinformatics/btp368
PhyloBayes 3: a Bayesian software package for phylogenetic reconstruction and molecular dating
Abstract
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.
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