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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...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2014
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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. |
format | Online Article Text |
id | pubmed-4166930 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2014 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
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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