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A massively parallel algorithm for finding non-existing sequences in genomes

View ORCID ProfileMarco Falda
doi: https://doi.org/10.1101/709949
Marco Falda
University of Padova Padova, Italy
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Abstract

We discuss a method for producing a set of absent words in a reference genome with a guaranteed Hamming distance along all positions and additional information about the number of mismatches, their location and the position of the best match. We implemented it exploiting the massively parallelism of modern GPUs hardware: the code is available at https://bitbucket.org/mfalda/cuda_keeseek/.

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  • https://bitbucket.org/mfalda/cuda_keeseek/

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The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC 4.0 International license.
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Posted July 20, 2019.
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A massively parallel algorithm for finding non-existing sequences in genomes
Marco Falda
bioRxiv 709949; doi: https://doi.org/10.1101/709949
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A massively parallel algorithm for finding non-existing sequences in genomes
Marco Falda
bioRxiv 709949; doi: https://doi.org/10.1101/709949

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