Arioc is an open source read alignment software tool authored by colleague Richard Wilton that runs on NVIDIA GPUs such as the Tesla K40 and K80 accelerators. In a new publication in PeerJ, we formulate the read alignment task as a series of list-processing operations that run very efficiently on GPU hardware. The method is extremely fast (2-3 times faster than other GPU approaches, about an order of magnitude faster than multithreaded non-GPU approaches) and demonstrates accuracy on par with widely used tools like Bowtie 2 and BWA-MEM. Arioc can also run on multiple accelerators simultaneously; when running on 3 K20c’s, Arioc produces read alignments faster than a magnetic hard drive can write them!
Arioc appears in PeerJ
Published:March 14, 2015
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