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13 p, 995.3 KB Boosting the FM-index on the GPU : effective techniques to mitigate random memory access / Chacón de San Baldomero, Alejandro (Universitat Autònoma de Barcelona) ; Marco-Sola, Santiago (Centre Nacional d'Anàlisi Genòmica) ; Espinosa Morales, Antonio Miguel (Universitat Autònoma de Barcelona) ; Ribeca, Paolo (The Pirbright Institute) ; Moure López, Juan Carlos (Universitat Autònoma de Barcelona)
The recent advent of high-throughput sequencing machines producing big amounts of short reads has boosted the interest in efficient string searching techniques. As of today, many mainstream sequence alignment software tools rely on a special data structure, called the FM-index, which allows for fast exact searches in large genomic references. [...]
2015 - 10.1109/TCBB.2014.2377716
IEEE/ACM Transactions on computational biology and bioinformatics, Vol. 12, No. 5 (Sep.-Oct. 2015)  

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