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A Gateway for Phylogenetic Analysis Powered by Grid Computing Featuring GARLI 2.0
We introduce molecularevolution.org, a publicly available gateway for high-throughput, maximum-likelihood phylogenetic analysis powered by grid computing. The gateway features a garli 2.0 web service that enables a user to quickly and easily submit thousands of maximum likelihood tree searches or bo...
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/PMC4141202/ https://www.ncbi.nlm.nih.gov/pubmed/24789072 http://dx.doi.org/10.1093/sysbio/syu031 |
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author | Bazinet, Adam L. Zwickl, Derrick J. Cummings, Michael P. |
author_facet | Bazinet, Adam L. Zwickl, Derrick J. Cummings, Michael P. |
author_sort | Bazinet, Adam L. |
collection | PubMed |
description | We introduce molecularevolution.org, a publicly available gateway for high-throughput, maximum-likelihood phylogenetic analysis powered by grid computing. The gateway features a garli 2.0 web service that enables a user to quickly and easily submit thousands of maximum likelihood tree searches or bootstrap searches that are executed in parallel on distributed computing resources. The garli web service allows one to easily specify partitioned substitution models using a graphical interface, and it performs sophisticated post-processing of phylogenetic results. Although the garli web service has been used by the research community for over three years, here we formally announce the availability of the service, describe its capabilities, highlight new features and recent improvements, and provide details about how the grid system efficiently delivers high-quality phylogenetic results. [garli, gateway, grid computing, maximum likelihood, molecular evolution portal, phylogenetics, web service.] |
format | Online Article Text |
id | pubmed-4141202 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2014 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-41412022014-08-25 A Gateway for Phylogenetic Analysis Powered by Grid Computing Featuring GARLI 2.0 Bazinet, Adam L. Zwickl, Derrick J. Cummings, Michael P. Syst Biol Software for Systematics and Evolution We introduce molecularevolution.org, a publicly available gateway for high-throughput, maximum-likelihood phylogenetic analysis powered by grid computing. The gateway features a garli 2.0 web service that enables a user to quickly and easily submit thousands of maximum likelihood tree searches or bootstrap searches that are executed in parallel on distributed computing resources. The garli web service allows one to easily specify partitioned substitution models using a graphical interface, and it performs sophisticated post-processing of phylogenetic results. Although the garli web service has been used by the research community for over three years, here we formally announce the availability of the service, describe its capabilities, highlight new features and recent improvements, and provide details about how the grid system efficiently delivers high-quality phylogenetic results. [garli, gateway, grid computing, maximum likelihood, molecular evolution portal, phylogenetics, web service.] Oxford University Press 2014-09 2014-04-30 /pmc/articles/PMC4141202/ /pubmed/24789072 http://dx.doi.org/10.1093/sysbio/syu031 Text en © The Author(s) 2014. Published by Oxford University Press, on behalf of the Society of Systematic Biologists. http://creativecommons.org/licenses/by-nc/3.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/3.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com. |
spellingShingle | Software for Systematics and Evolution Bazinet, Adam L. Zwickl, Derrick J. Cummings, Michael P. A Gateway for Phylogenetic Analysis Powered by Grid Computing Featuring GARLI 2.0 |
title | A Gateway for Phylogenetic Analysis Powered by Grid Computing Featuring GARLI 2.0 |
title_full | A Gateway for Phylogenetic Analysis Powered by Grid Computing Featuring GARLI 2.0 |
title_fullStr | A Gateway for Phylogenetic Analysis Powered by Grid Computing Featuring GARLI 2.0 |
title_full_unstemmed | A Gateway for Phylogenetic Analysis Powered by Grid Computing Featuring GARLI 2.0 |
title_short | A Gateway for Phylogenetic Analysis Powered by Grid Computing Featuring GARLI 2.0 |
title_sort | gateway for phylogenetic analysis powered by grid computing featuring garli 2.0 |
topic | Software for Systematics and Evolution |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4141202/ https://www.ncbi.nlm.nih.gov/pubmed/24789072 http://dx.doi.org/10.1093/sysbio/syu031 |
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