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dc.contributor.authorKent, Edwarden_US
dc.contributor.authorHoops, Stefanen_US
dc.contributor.authorMendes, Pedroen_US
dc.date.accessioned2012-12-20T16:08:24Z
dc.date.available2012-12-20T16:08:24Z
dc.date.issued2012-07-26
dc.identifier.citationBMC Systems Biology. 2012 Jul 26;6(1):91en_US
dc.identifier.urihttp://hdl.handle.net/10919/19098
dc.description.abstractBackground Mathematical modelling has become a standard technique to improve our understanding of complex biological systems. As models become larger and more complex, simulations and analyses require increasing amounts of computational power. Clusters of computers in a high-throughput computing environment can help to provide the resources required for computationally expensive model analysis. However, exploiting such a system can be difficult for users without the necessary expertise. Results We present Condor-COPASI, a server-based software tool that integrates COPASI, a biological pathway simulation tool, with Condor, a high-throughput computing environment. Condor-COPASI provides a web-based interface, which makes it extremely easy for a user to run a number of model simulation and analysis tasks in parallel. Tasks are transparently split into smaller parts, and submitted for execution on a Condor pool. Result output is presented to the user in a number of formats, including tables and interactive graphical displays. Conclusions Condor-COPASI can effectively use a Condor high-throughput computing environment to provide significant gains in performance for a number of model simulation and analysis tasks. Condor-COPASI is free, open source software, released under the Artistic License 2.0, and is suitable for use by any institution with access to a Condor pool. Source code is freely available for download at http://code.google.com/p/condor-copasi/, along with full instructions on deployment and usage.en_US
dc.format.mimetypeapplication/pdf
dc.language.isoen_US
dc.rightsCreative Commons Attribution 4.0 International*
dc.rights.urihttps://creativecommons.org/licenses/by/4.0/*
dc.titleCondor-COPASI: high-throughput computing for biochemical networksen_US
dc.typeArticle - Refereed
dc.date.updated2012-12-20T16:08:24Z
dc.description.versionPeer Reviewed
dc.rights.holderEdward Kent et al.; licensee BioMed Central Ltd.en_US
dc.title.serialBMC Systems Biology
dc.identifier.doihttps://doi.org/10.1186/1752-0509-6-91
dc.type.dcmitypeText


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Creative Commons Attribution 4.0 International
License: Creative Commons Attribution 4.0 International