Cloud-Coffee: implementation of a parallel consistency-based multiple alignment algorithm in the T-Coffee package and its benchmarking on the Amazon Elastic-Cloud

Summary: We present the first parallel implementation of the T-Coffee consistency-based multiple aligner. We benchmark it on the Amazon Elastic Cloud (EC2) and show that the parallelization procedure is reasonably effective. We also conclude that for a web server with moderate usage (10K hits/month)...

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Detalles Bibliográficos
Autores principales: Di Tommaso, Paolo, Orobitg, Miquel, Guirado, Fernando, Cores, Fernado, Espinosa, Toni, Notredame, Cedric
Formato: Texto
Lenguaje:English
Publicado: Oxford University Press 2010
Materias:
Applications Note
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2905555/
https://www.ncbi.nlm.nih.gov/pubmed/20605929
http://dx.doi.org/10.1093/bioinformatics/btq304
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author Di Tommaso, Paolo
Orobitg, Miquel
Guirado, Fernando
Cores, Fernado
Espinosa, Toni
Notredame, Cedric
author_facet Di Tommaso, Paolo
Orobitg, Miquel
Guirado, Fernando
Cores, Fernado
Espinosa, Toni
Notredame, Cedric
author_sort Di Tommaso, Paolo
collection PubMed
description Summary: We present the first parallel implementation of the T-Coffee consistency-based multiple aligner. We benchmark it on the Amazon Elastic Cloud (EC2) and show that the parallelization procedure is reasonably effective. We also conclude that for a web server with moderate usage (10K hits/month) the cloud provides a cost-effective alternative to in-house deployment. Availability: T-Coffee is a freeware open source package available from http://www.tcoffee.org/homepage.html Contact: cedric.notredame@crg.es
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spelling pubmed-29055552010-07-19 Cloud-Coffee: implementation of a parallel consistency-based multiple alignment algorithm in the T-Coffee package and its benchmarking on the Amazon Elastic-Cloud Di Tommaso, Paolo Orobitg, Miquel Guirado, Fernando Cores, Fernado Espinosa, Toni Notredame, Cedric Bioinformatics Applications Note Summary: We present the first parallel implementation of the T-Coffee consistency-based multiple aligner. We benchmark it on the Amazon Elastic Cloud (EC2) and show that the parallelization procedure is reasonably effective. We also conclude that for a web server with moderate usage (10K hits/month) the cloud provides a cost-effective alternative to in-house deployment. Availability: T-Coffee is a freeware open source package available from http://www.tcoffee.org/homepage.html Contact: cedric.notredame@crg.es Oxford University Press 2010-08-01 2010-07-06 /pmc/articles/PMC2905555/ /pubmed/20605929 http://dx.doi.org/10.1093/bioinformatics/btq304 Text en © The Author(s) 2010. Published by Oxford University Press. http://creativecommons.org/licenses/by-nc/2.0/uk/ This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.5), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Applications Note
Di Tommaso, Paolo
Orobitg, Miquel
Guirado, Fernando
Cores, Fernado
Espinosa, Toni
Notredame, Cedric
Cloud-Coffee: implementation of a parallel consistency-based multiple alignment algorithm in the T-Coffee package and its benchmarking on the Amazon Elastic-Cloud
title Cloud-Coffee: implementation of a parallel consistency-based multiple alignment algorithm in the T-Coffee package and its benchmarking on the Amazon Elastic-Cloud
title_full Cloud-Coffee: implementation of a parallel consistency-based multiple alignment algorithm in the T-Coffee package and its benchmarking on the Amazon Elastic-Cloud
title_fullStr Cloud-Coffee: implementation of a parallel consistency-based multiple alignment algorithm in the T-Coffee package and its benchmarking on the Amazon Elastic-Cloud
title_full_unstemmed Cloud-Coffee: implementation of a parallel consistency-based multiple alignment algorithm in the T-Coffee package and its benchmarking on the Amazon Elastic-Cloud
title_short Cloud-Coffee: implementation of a parallel consistency-based multiple alignment algorithm in the T-Coffee package and its benchmarking on the Amazon Elastic-Cloud
title_sort cloud-coffee: implementation of a parallel consistency-based multiple alignment algorithm in the t-coffee package and its benchmarking on the amazon elastic-cloud
topic Applications Note
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2905555/
https://www.ncbi.nlm.nih.gov/pubmed/20605929
http://dx.doi.org/10.1093/bioinformatics/btq304
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