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dc.contributor.authorWhiteford, Nava
dc.contributor.authorSkelly, Tom
dc.contributor.authorCurtis, Christina
dc.contributor.authorRitchie, Matt E.
dc.contributor.authorLöhr, Andrea
dc.contributor.authorZaranek, Alexander Wait
dc.contributor.authorAbnizova, Irina
dc.contributor.authorBrown, Clive
dc.date.accessioned2010-12-09T16:38:36Z
dc.date.issued2009
dc.identifier.citationWhiteford, Nava, Tom Skelly, Christina Curtis, Matt E. Ritchie, Andrea Löhr, Alexander Wait Zaranek, Irina Abnizova, and Clive Brown. 2009. Swift: primary data analysis for the Illumina Solexa sequencing platform. Bioinformatics 25(17): 2194-2199.en_US
dc.identifier.issn1367-4803en_US
dc.identifier.issn1460-2059en_US
dc.identifier.urihttp://nrs.harvard.edu/urn-3:HUL.InstRepos:4621712
dc.description.abstractMotivation: Primary data analysis methods are of critical importance in second generation DNA sequencing. Improved methods have the potential to increase yield and reduce the error rates. Openly documented analysis tools enable the user to understand the primary data, this is important for the optimization and validity of their scientific work. Results: In this article, we describe Swift, a new tool for performing primary data analysis on the Illumina Solexa Sequencing Platform. Swift is the first tool, outside of the vendors own software, which completes the full analysis process, from raw images through to base calls. As such it provides an alternative to, and independent validation of, the vendor supplied tool. Our results show that Swift is able to increase yield by 13.8%, at comparable error rate. Availability and Implementation: Swift is implemented in C++and supported under Linux. It is supplied under an open source license (LGPL3), allowing researchers to build upon the platform. Swift is available from http://swiftng.sourceforge.net. Supplementary information: Supplementary data are available at Bioinformatics online.en_US
dc.language.isoen_USen_US
dc.publisherOxford University Pressen_US
dc.relation.isversionofdoi:10.1093/bioinformatics/btp383en_US
dc.relation.hasversionhttp://www.ncbi.nlm.nih.gov/pmc/articles/PMC2734321/pdf/en_US
dash.licenseLAA
dc.subjectSequence Analysisen_US
dc.titleSwift: Primary Data Analysis for the Illumina Solexa Sequencing Platformen_US
dc.typeJournal Articleen_US
dc.description.versionVersion of Recorden_US
dc.relation.journalBioinformaticsen_US
dash.depositing.authorZaranek, Alexander Wait
dc.date.available2010-12-09T16:38:36Z
dash.affiliation.otherHMS^Geneticsen_US
dc.identifier.doi10.1093/bioinformatics/btp383*
dash.contributor.affiliatedWait, Alexander


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