P3: Phylogenetic Posterior Prediction in RevBayes

Molecular Biology and Evolution
Sebastian HöhnaJeremy M Brown

Abstract

Tests of absolute model fit are crucial in model-based inference because poorly structured models can lead to biased parameter estimates. In Bayesian inference, posterior predictive simulations can be used to test absolute model fit. However, such tests have not been commonly practiced in phylogenetic inference due to a lack of convenient and flexible software. Here, we describe our newly implemented tests of model fit using posterior predictive testing, based on both data- and inference-based test statistics, in the phylogenetics software RevBayes. This new implementation makes a large spectrum of models available for use through a user-friendly and flexible interface.

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Jul 3, 2013·Molecular Biology and Evolution·Jonathan RomiguierEmmanuel J P Douzery
Feb 25, 2014·Systematic Biology·Jeremy M Brown
Jun 22, 2014·Systematic Biology·Sebastian HöhnaJohn P Huelsenbeck
Jun 24, 2015·Systematic Biology·Vinson P DoyleJeremy M Brown
Mar 24, 2017·Molecular Biology and Evolution·David A DuchêneSimon Y W Ho

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Citations

Apr 9, 2019·PLoS Computational Biology·Remco BouckaertAlexei J Drummond
Mar 20, 2020·Molecular Biology and Evolution·Stephanie J Spielman
May 3, 2020·Molecular Biology and Evolution·Arthur Zwaenepoel, Yves Van de Peer
Nov 24, 2020·The New Phytologist·Anna Rice, Itay Mayrose

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