Estimating a time-calibrated phylogeny of fossil and extant taxa using RevBayes - Inria - Institut national de recherche en sciences et technologies du numérique Accéder directement au contenu
Chapitre D'ouvrage Année : 2020

Estimating a time-calibrated phylogeny of fossil and extant taxa using RevBayes

Résumé

The fossil record is the primary source of time-stamped information useful for dating phylogenetic trees; and many statistical approaches are available for integrating data from fossil and living species. In this tutorial, we demonstrate how to perform joint inference of divergence times and phylogenetic relationships of fossil and extant taxa from morphological data using the program RevBayes. RevBayes (http://revbayes.com) is a flexible and powerful tool for Bayesian phylogenetic inference. Statistical models in RevBayes are built using probabilistic graphical models and described via an interpreted programming language. As a result, RevBayes offers a wide range of statistical models—ranging from very simple models with few parameters to hierarchical models describing complex biological processes—that are useful in many biological applications. The exercise described here provides instructions on how to construct a phylogenetic model combining the fossilized birth-death process and models describing the generation of morphological data, which is then used to execute an analysis that unites modern and extinct taxa in a dated phylogenetic tree. The content and associated files for this tutorial are kept up-to-date at: http://revbayes.com/tutorials/fbd_simple.
Fichier principal
Vignette du fichier
chapter_5.2_heath2.pdf (1.62 Mo) Télécharger le fichier
Origine : Fichiers éditeurs autorisés sur une archive ouverte
Loading...

Dates et versions

hal-02536394 , version 1 (10-04-2020)
hal-02536394 , version 2 (26-11-2020)

Licence

Paternité - Pas d'utilisation commerciale - Pas de modification

Identifiants

  • HAL Id : hal-02536394 , version 1

Citer

Joëlle Barido-Sottani, Joshua A. Justison, April M. Wright, Rachel C.M. Warnock, Walker Pett, et al.. Estimating a time-calibrated phylogeny of fossil and extant taxa using RevBayes. Céline Scornavacca; Frédéric Delsuc; Nicolas Galtier. Phylogenetics in the Genomic Era, No commercial publisher | Authors open access book, pp.5.2:1--5.2:23, 2020. ⟨hal-02536394v1⟩
903 Consultations
610 Téléchargements

Partager

Gmail Facebook X LinkedIn More