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ExaBayes: Massively Parallel Bayesian Tree Inference for the Whole-Genome Era

Modern sequencing technology now allows biologists to collect the entirety of molecular evidence for reconstructing evolutionary trees. We introduce a novel, user-friendly software package engineered for conducting state-of-the-art Bayesian tree inferences on data sets of arbitrary size. Our softwar...

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Detalles Bibliográficos
Autores principales: Aberer, Andre J., Kobert, Kassian, Stamatakis, Alexandros
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2014
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4166930/
https://www.ncbi.nlm.nih.gov/pubmed/25135941
http://dx.doi.org/10.1093/molbev/msu236
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author Aberer, Andre J.
Kobert, Kassian
Stamatakis, Alexandros
author_facet Aberer, Andre J.
Kobert, Kassian
Stamatakis, Alexandros
author_sort Aberer, Andre J.
collection PubMed
description Modern sequencing technology now allows biologists to collect the entirety of molecular evidence for reconstructing evolutionary trees. We introduce a novel, user-friendly software package engineered for conducting state-of-the-art Bayesian tree inferences on data sets of arbitrary size. Our software introduces a nonblocking parallelization of Metropolis-coupled chains, modifications for efficient analyses of data sets comprising thousands of partitions and memory saving techniques. We report on first experiences with Bayesian inferences at the whole-genome level using the SuperMUC supercomputer and simulated data.
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spelling pubmed-41669302014-09-22 ExaBayes: Massively Parallel Bayesian Tree Inference for the Whole-Genome Era Aberer, Andre J. Kobert, Kassian Stamatakis, Alexandros Mol Biol Evol Fast Track Modern sequencing technology now allows biologists to collect the entirety of molecular evidence for reconstructing evolutionary trees. We introduce a novel, user-friendly software package engineered for conducting state-of-the-art Bayesian tree inferences on data sets of arbitrary size. Our software introduces a nonblocking parallelization of Metropolis-coupled chains, modifications for efficient analyses of data sets comprising thousands of partitions and memory saving techniques. We report on first experiences with Bayesian inferences at the whole-genome level using the SuperMUC supercomputer and simulated data. Oxford University Press 2014-10 2014-08-18 /pmc/articles/PMC4166930/ /pubmed/25135941 http://dx.doi.org/10.1093/molbev/msu236 Text en © The Author 2014. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution. http://creativecommons.org/licenses/by/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Fast Track
Aberer, Andre J.
Kobert, Kassian
Stamatakis, Alexandros
ExaBayes: Massively Parallel Bayesian Tree Inference for the Whole-Genome Era
title ExaBayes: Massively Parallel Bayesian Tree Inference for the Whole-Genome Era
title_full ExaBayes: Massively Parallel Bayesian Tree Inference for the Whole-Genome Era
title_fullStr ExaBayes: Massively Parallel Bayesian Tree Inference for the Whole-Genome Era
title_full_unstemmed ExaBayes: Massively Parallel Bayesian Tree Inference for the Whole-Genome Era
title_short ExaBayes: Massively Parallel Bayesian Tree Inference for the Whole-Genome Era
title_sort exabayes: massively parallel bayesian tree inference for the whole-genome era
topic Fast Track
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4166930/
https://www.ncbi.nlm.nih.gov/pubmed/25135941
http://dx.doi.org/10.1093/molbev/msu236
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