{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,16]],"date-time":"2026-04-16T13:58:29Z","timestamp":1776347909528,"version":"3.51.2"},"reference-count":23,"publisher":"Oxford University Press (OUP)","issue":"17","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2009,9,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>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.<\/jats:p>\n               <jats:p>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.<\/jats:p>\n               <jats:p>Availability: PhyloBayes is freely available from our web site http:\/\/www.phylobayes.org. It works under Linux, Mac OsX and Windows operating systems.<\/jats:p>\n               <jats:p>Contact: \u00a0nicolas.lartillot@umontreal.ca<\/jats:p>\n               <jats:p>Supplementary information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btp368","type":"journal-article","created":{"date-parts":[[2009,6,18]],"date-time":"2009-06-18T01:45:34Z","timestamp":1245289534000},"page":"2286-2288","source":"Crossref","is-referenced-by-count":1182,"title":["PhyloBayes 3: a Bayesian software package for phylogenetic reconstruction and molecular dating"],"prefix":"10.1093","volume":"25","author":[{"given":"Nicolas","family":"Lartillot","sequence":"first","affiliation":[{"name":"1 D\u00e9partement de Biochimie, Universit\u00e9 de Montr\u00e9al, Montr\u00e9al, Qu\u00e9bec, Canada and 2 D\u00e9partement d'Informatique, LIRMM, Montpellier, France"}]},{"given":"Thomas","family":"Lepage","sequence":"additional","affiliation":[{"name":"1 D\u00e9partement de Biochimie, Universit\u00e9 de Montr\u00e9al, Montr\u00e9al, Qu\u00e9bec, Canada and 2 D\u00e9partement d'Informatique, LIRMM, Montpellier, France"}]},{"given":"Samuel","family":"Blanquart","sequence":"additional","affiliation":[{"name":"1 D\u00e9partement de Biochimie, Universit\u00e9 de Montr\u00e9al, Montr\u00e9al, Qu\u00e9bec, Canada and 2 D\u00e9partement d'Informatique, LIRMM, Montpellier, France"}]}],"member":"286","published-online":{"date-parts":[[2009,6,17]]},"reference":[{"key":"2023013112104907100_B1","doi-asserted-by":"crossref","first-page":"77","DOI":"10.1186\/1471-2148-8-77","article-title":"Birth-death prior on phylogeny and speed dating","volume":"8","author":"Akerborg","year":"2008","journal-title":"BMC Evol. 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