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dc.contributor.authorRius Torrentó, Josep Maria
dc.contributor.authorCores Prado, Fernando
dc.contributor.authorSolsona Tehàs, Francesc
dc.contributor.authorHemert, Jano van
dc.contributor.authorKoetsier, Jos
dc.contributor.authorNotredame, Cedric
dc.date.accessioned2011-07-08T08:18:16Z
dc.date.available2011-07-08T08:18:16Z
dc.date.issued2011
dc.identifier.issn1471-2105
dc.identifier.urihttp://hdl.handle.net/10459.1/41533
dc.description.abstractBackground: Parallel T-Coffee (PTC) was the first parallel implementation of the T-Coffee multiple sequence alignment tool. It is based on MPI and RMA mechanisms. Its purpose is to reduce the execution time of the large-scale sequence alignments. It can be run on distributed memory clusters allowing users to align data sets consisting of hundreds of proteins within a reasonable time. However, most of the potential users of this tool are not familiar with the use of grids or supercomputers. Results: In this paper we show how PTC can be easily deployed and controlled on a super computer architecture using a web portal developed using Rapid. Rapid is a tool for efficiently generating standardized portlets for a wide range of applications and the approach described here is generic enough to be applied to other applications, or to deploy PTC on different HPC environments. Conclusions: The PTC portal allows users to upload a large number of sequences to be aligned by the parallel version of TC that cannot be aligned by a single machine due to memory and execution time constraints. The web portal provides a user-friendly solution.ca_ES
dc.description.sponsorshipCN is funded by the Plan Nacional BFU2008-00419 and the European Comissison FP7 framework quantomics (KBBE-2A-222664) and Leishdrud (223414). J.R., F.C. and F.S. are funded by the Spanish ministry of education (TIN2008-05913) and the consolider Project (CSD 2007-00050) Super-computacion y e-Ciencia (SYEC). J.R. is also funded by the European Social Found and the HPC-EUROPA2 project (project number: 228398) and the CUR of DIUE of GENCAT. EPSRC, JISC, BBSRC and NERC for funding the development and application of Rapid (J.v.H. and J.K.).
dc.language.isoengca_ES
dc.publisherBioMed Centralca_ES
dc.relationMICINN/PN2008-2011/BFU2008-00419
dc.relationMICINN/PN2008-2011/TIN2008-05913
dc.relationMIECI/PN2004-2007/CSD 2007-00050
dc.relation.isformatofReproducció del document publicat a https://doi.org/10.1186/1471-2105-12-150ca_ES
dc.relation.ispartofBMC Bioinformatics, 2011, vol. 12, núm. 150, p. 1-5ca_ES
dc.rightscc-by, (c) Rius et al., 2011ca_ES
dc.rights.urihttp://creativecommons.org/licenses/by/2.0/es/deed.caca_ES
dc.subject.otherAlgorismes computacionalsca_ES
dc.subject.otherProcessament electrònic de dades -- Disseny de sistemesca_ES
dc.titleA user-friendly web portal for T-Coffee on supercomputersca_ES
dc.typearticleca_ES
dc.identifier.idgrec016553
dc.type.versionpublishedVersionca_ES
dc.rights.accessRightsinfo:eu-repo/semantics/openAccess
dc.identifier.doihttps://doi.org/10.1186/1471-2105-12-150
dc.relation.projectIDinfo:eu-repo/grantAgreement/EC/FP7/222664
dc.relation.projectIDinfo:eu-repo/grantAgreement/EC/FP7/223414
dc.relation.projectIDinfo:eu-repo/grantAgreement/EC/FP7/228398


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cc-by, (c) Rius et al., 2011
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