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Buffer abundance queries in kevlar novel #208

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standage opened this issue Feb 10, 2018 · 0 comments
Open

Buffer abundance queries in kevlar novel #208

standage opened this issue Feb 10, 2018 · 0 comments
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optimization

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@standage
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The longest step of the kevlar pipeline by far is finding the novel k-mers, and cache misses from Count-Min Sketch k-mer abundance queries are a big part of this. I should investigate whether buffering, sorting, and batch querying k-mers can reduce cache misses and improve runtime performance.
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