Introduction

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.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.

Publications

  1. Swift: primary data analysis for the Illumina Solexa sequencing platform.
    Cite this
    Whiteford N, Skelly T, Curtis C, Ritchie ME, Löhr A, Zaranek AW, Abnizova I, Brown C, 2009-09-01 - Bioinformatics (Oxford, England)

Credits

  1. Nava Whiteford
    Developer

    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, United Kingdom of Great Britain and Northern Ireland

  2. Tom Skelly
    Developer

  3. Christina Curtis
    Developer

  4. Matt E Ritchie
    Developer

  5. Andrea Löhr
    Developer

  6. Alexander Wait Zaranek
    Developer

  7. Irina Abnizova
    Developer

  8. Clive Brown
    Investigator

Community Ratings

UsabilityEfficiencyReliabilityRated By
0 user
Sign in to rate
Summary
AccessionBT001521
Tool TypeApplication
Category
PlatformsLinux/Unix
TechnologiesC++
User InterfaceTerminal Command Line
Download Count0
Submitted ByClive Brown