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Bringing numerous methods for expression and promoter analysis to a public cloud computing service
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Polański, Krzysztof , Gao, Bo, Mason, Sam, Brown, Paul E., Ott, Sascha, Denby, Katherine J. and Wild, David L. (2018) Bringing numerous methods for expression and promoter analysis to a public cloud computing service. Bioinformatics, 34 (5). pp. 884-886. doi:10.1093/bioinformatics/btx692 ISSN 1367-4803.
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Official URL: https://doi.org/10.1093/bioinformatics/btx692
Abstract
Every year, a large number of novel algorithms are introduced to the scientific community for a myriad of applications, but using these across different research groups is often troublesome, due to suboptimal implementations and specific dependency requirements. This does not have to be the case, as public cloud computing services can easily house tractable implementations within self-contained dependency environments, making the methods easily accessible to a wider public. We have taken 14 popular methods, the majority related to expression data or promoter analysis, developed these up to a good implementation standard and housed the tools in isolated Docker containers which we integrated into the CyVerse Discovery Environment, making these easily usable for a wide community as part of the CyVerse UK project.
| Item Type: | Journal Article | ||||||||
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| Subjects: | T Technology > TK Electrical engineering. Electronics Nuclear engineering | ||||||||
| Divisions: | Faculty of Science, Engineering and Medicine > Science > Computer Science Faculty of Science, Engineering and Medicine > Science > Life Sciences (2010- ) Faculty of Science, Engineering and Medicine > Science > Mathematics Faculty of Science, Engineering and Medicine > Science > Statistics Faculty of Science, Engineering and Medicine > Research Centres > Warwick Systems Biology Centre |
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| Library of Congress Subject Headings (LCSH): | Cloud computing -- Security measures, Nanoelectronics -- Statistical methods, Integrated circuits -- Computer-aided design, Algorithms | ||||||||
| Journal or Publication Title: | Bioinformatics | ||||||||
| Publisher: | Oxford University Press | ||||||||
| ISSN: | 1367-4803 | ||||||||
| Official Date: | 1 March 2018 | ||||||||
| Dates: |
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| Volume: | 34 | ||||||||
| Number: | 5 | ||||||||
| Page Range: | pp. 884-886 | ||||||||
| DOI: | 10.1093/bioinformatics/btx692 | ||||||||
| Status: | Peer Reviewed | ||||||||
| Publication Status: | Published | ||||||||
| Access rights to Published version: | Open Access (Creative Commons) | ||||||||
| Date of first compliant deposit: | 30 October 2017 | ||||||||
| Date of first compliant Open Access: | 19 January 2018 | ||||||||
| RIOXX Funder/Project Grant: |
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