Real-Time and Remote MCMC Trace Inspection with Beastiary

Wytamma Wirth; Sebastian Duchene

doi:10.1093/molbev/msac095

Real-Time and Remote MCMC Trace Inspection with Beastiary

Mol Biol Evol. 2022 May 3;39(5):msac095. doi: 10.1093/molbev/msac095.

Authors

Wytamma Wirth¹, Sebastian Duchene¹

Affiliation

¹ Peter Doherty Institute for Infection and Immunity, University of Melbourne, Melbourne, Australia.

Abstract

Bayesian phylogenetics has gained substantial popularity in the last decade, with most implementations relying on Markov chain Monte Carlo (MCMC). The computational demands of MCMC mean that remote servers are increasingly used. We present Beastiary, a package for real-time and remote inspection of log files generated by MCMC analyses. Beastiary is an easily deployed web-app that can be used to summarize and visualize the output of many popular software packages including BEAST, BEAST2, RevBayes, and MrBayes via a web browser. We describe the design and implementation of Beastiary and some typical use-cases, with a focus on real-time remote monitoring.

Keywords: Bayesian phylogenetics; Markov chain Monte Carlo; high performance computing; real-time phylogenetics.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Bayes Theorem
Markov Chains
Monte Carlo Method
Phylogeny
Software*