Real-Time and Remote MCMC Trace Inspection with Beastiary

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...

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Detalles Bibliográficos
Autores principales: Wirth, Wytamma, Duchene, Sebastian
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2022
Materias:
Resources
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9156035/
https://www.ncbi.nlm.nih.gov/pubmed/35552742
http://dx.doi.org/10.1093/molbev/msac095
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author Wirth, Wytamma
Duchene, Sebastian
author_facet Wirth, Wytamma
Duchene, Sebastian
author_sort Wirth, Wytamma
collection PubMed
description 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.
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spelling pubmed-91560352022-06-04 Real-Time and Remote MCMC Trace Inspection with Beastiary Wirth, Wytamma Duchene, Sebastian Mol Biol Evol Resources 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. Oxford University Press 2022-05-12 /pmc/articles/PMC9156035/ /pubmed/35552742 http://dx.doi.org/10.1093/molbev/msac095 Text en © The Author(s) 2022. Published by Oxford University Press on behalf of Society for Molecular Biology and Evolution. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Resources
Wirth, Wytamma
Duchene, Sebastian
Real-Time and Remote MCMC Trace Inspection with Beastiary
title Real-Time and Remote MCMC Trace Inspection with Beastiary
title_full Real-Time and Remote MCMC Trace Inspection with Beastiary
title_fullStr Real-Time and Remote MCMC Trace Inspection with Beastiary
title_full_unstemmed Real-Time and Remote MCMC Trace Inspection with Beastiary
title_short Real-Time and Remote MCMC Trace Inspection with Beastiary
title_sort real-time and remote mcmc trace inspection with beastiary
topic Resources
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9156035/
https://www.ncbi.nlm.nih.gov/pubmed/35552742
http://dx.doi.org/10.1093/molbev/msac095
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