Skip to Main content Skip to Navigation
Book sections

PhyloBayes: Bayesian Phylogenetics Using Site-heterogeneous Models

Abstract : PhyloBayes is a software program for Bayesian phylogenetic reconstruction. Compared to other programs, its main distinguishing feature is the implementation of the CAT model, which accounts for fine-grained variation across sites in amino acid preferences using a Bayesian non-parametric approach. This chapter provides a detailed step-by-step practical introduction to phylogenetic analyses using PhyloBayes, using as an example a previously published dataset addressing the phylogenetic position of Microsporidia within eukaryotes. Through this historically emblematic case of a long-branch attraction artifact, a complete analysis under site-homogeneous and site-heterogeneous models is conducted and interpreted, thus providing an illustration of why modeling pattern variation is so fundamental for reconstructing deep phylogenies.
Complete list of metadata

Cited literature [39 references]  Display  Hide  Download
Contributor : Christine Bibal Connect in order to contact the contributor
Submitted on : Friday, April 10, 2020 - 2:54:40 PM
Last modification on : Sunday, September 25, 2022 - 3:55:14 AM


Files produced by the author(s)


Distributed under a Creative Commons Attribution - NonCommercial - NoDerivatives 4.0 International License


  • HAL Id : hal-02535342, version 1



Nicolas Lartillot. PhyloBayes: Bayesian Phylogenetics Using Site-heterogeneous Models. Scornavacca, Celine; Delsuc, Frédéric; Galtier, Nicolas. Phylogenetics in the Genomic Era, No commercial publisher | Authors open access book, pp.1.5:1--1.5:16, 2020. ⟨hal-02535342⟩



Record views


Files downloads