CUED Publications database

BarraCUDA - a fast short read sequence aligner using graphics processing units.

Klus, P and Lam, S and Lyberg, D and Cheung, MS and Pullan, G and McFarlane, I and Yeo, GSH and Lam, BY (2012) BarraCUDA - a fast short read sequence aligner using graphics processing units. BMC Res Notes, 5. 27-.

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Abstract

With the maturation of next-generation DNA sequencing (NGS) technologies, the throughput of DNA sequencing reads has soared to over 600 gigabases from a single instrument run. General purpose computing on graphics processing units (GPGPU), extracts the computing power from hundreds of parallel stream processors within graphics processing cores and provides a cost-effective and energy efficient alternative to traditional high-performance computing (HPC) clusters. In this article, we describe the implementation of BarraCUDA, a GPGPU sequence alignment software that is based on BWA, to accelerate the alignment of sequencing reads generated by these instruments to a reference DNA sequence.

Item Type: Article
Subjects: UNSPECIFIED
Divisions: Div A > Turbomachinery
Depositing User: Cron Job
Date Deposited: 07 Mar 2014 11:22
Last Modified: 27 Oct 2014 01:06
DOI: 10.1186/1756-0500-5-27