Hardware acceleration of BWA-MEM genomic short read mapping for longer read lengths
Computational Biology and Chemistry(2018)
摘要
We present our work on hardware accelerated genomics pipelines, using either FPGAs or GPUs to accelerate execution of BWA-MEM, a widely-used algorithm for genomic short read mapping. The mapping stage can take up to 40% of overall processing time for genomics pipelines. Our implementation offloads the Seed Extension function, one of the main BWA-MEM computational functions, onto an accelerator.
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关键词
Acceleration,BWA-MEM,FPGA,GPU,Short read mapping,Systolic array
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