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Massively parallel FPGA-based implementation of BLASTp with the two-hit method
2011
Procedia Computer Science
Protein database search requests are generally being performed using the BLASTp algorithm, introduced by NCBI [1]. Since it is computationally intensive, it becomes more and more ineffective with today's growth of sequence database sizes. The needs for an efficient parallel implementation arise. In this paper, we focus on a massive parallelization using the FPGA-based hardware architecture RIVYERA [2] . The aim is to reach speedups in orders of magnitude with a flexible implementation while
doi:10.1016/j.procs.2011.04.215
fatcat:qrrxv5qmfnacflc4tru24feh54