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inria-00348482, version 1

Parallel Reconfigurable Operator for Genomic Sequence Comparison: Architecture and Performance Analyses

Alexandre Cornu ()^a^, 1, Francois Dussaugey ¹, Dominique Lavenier ()^b^, 1

N° RR-6776 (2008)

Abstract: This document describes a parallel genomic sequence comparison operator for reconfigurable platforms. It has been implemented for speeding up the time consuming parts of the IRISA-TBLASTN program designed for comparing full genomes with large protein banks. Speed-up ranging from 25 to 200 has been measured on real genomic data.

a – INRIA
b – Ecole Normale Supérieure de Cachan
1: SYMBIOSE (INRIA - IRISA)
CNRS : UMR6074 – INRIA – INSA Rennes – Université de Rennes 1

Collaboration : BULL - Les Clayes sous Bois

inria-00348482, version 1
http://hal.inria.fr/inria-00348482
oai:hal.inria.fr:inria-00348482
From: Dominique Lavenier <>
Submitted on: Tuesday, 23 December 2008 09:15:12
Updated on: Monday, 5 January 2009 10:53:04

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