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2007
Springer

Applying SIMD Approach to Whole Genome Comparison on Commodity Hardware

9 years 3 months ago
Applying SIMD Approach to Whole Genome Comparison on Commodity Hardware
Abstract. Whole genome comparison compares (aligns) two genome sequences assuming that analogous characteristics may be found. In this paper, we present an SIMD version of the Smith-Waterman algorithm utilizing Streaming SIMD Extensions (SSE), running on Intel Pentium processors. We compare two approaches, one requiring explicit data dependency handling and one built to automatically handle dependencies and establish their optimal performance conditions.
Arpith C. Jacob, Marcin Paprzycki, Maria Ganzha, S
Added 09 Jun 2010
Updated 09 Jun 2010
Type Conference
Year 2007
Where PPAM
Authors Arpith C. Jacob, Marcin Paprzycki, Maria Ganzha, Sugata Sanyal
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