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panvram: GPU-resident random access to a human pangenome cohort

Shavidze, Yakiv
arXiv (All) · Papers
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and-cluster-computingdistributedgenomicsj-3parallelperformance
Repeatedly sampling short sequence windows from a human pangenome requires an access representation as well as compression. panvram stores each assembly as a reference-relative block archive and pools these archives on a GPU. For 558 haplotype assemblies, the default q4k representation occupies 16.6
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