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Related Articles Swift: Primary Data Analysis for the Illumina Solexa Sequencing Platform.
Bioinformatics. 2009 Jun 23;
Authors: Whiteford N, Skelly T, Curtis C, Ritchie ME, Löhr A, Zaranek AW, Abnizova I, Brown C
MOTIVATION: 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 optimisation and validity of their scientific work.] RESULTS: In this paper 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. CONTACT: [email protected].
PMID: 19549630 [PubMed - as supplied by publisher]
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Related Articles Swift: Primary Data Analysis for the Illumina Solexa Sequencing Platform.
Bioinformatics. 2009 Jun 23;
Authors: Whiteford N, Skelly T, Curtis C, Ritchie ME, Löhr A, Zaranek AW, Abnizova I, Brown C
MOTIVATION: 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 optimisation and validity of their scientific work.] RESULTS: In this paper 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. CONTACT: [email protected].
PMID: 19549630 [PubMed - as supplied by publisher]
More...