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The aim of the BarraCUDA project is to develop a sequence mapping software that utilizes the massive parallelism of graphics processing units (GPUs) to accelerate the inexact alignment of short sequence reads to a particular location on a reference genome. BarraCUDA can align a paired-end library containing 14 million pairs of 76bp reads to the human genome in about 9 minutes from fastq files to SAM alignment using a an NVIDIA Tesla K80. The alignment throughput can be boosted further by using multiple GPUs (up to 8) at the same time.
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