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BioinformaticsBioinformaticsPeer-reviewed journal article

Kmer-db: instant evolutionary distance estimation

Sebastian DeorowicziD, Adam GudyśiD, Maciej DługosziD, Marek KokotiD, Agnieszka DanekiD

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Abstract

SummaryKmer-db is a new tool for estimating evolutionary relationship on the basis of k-mers extracted from genomes or sequencing reads. Thanks to an efficient data structure and parallel implementation, our software estimates distances between 40,715 pathogens in less than 4 minutes (on a modern workstation), 44 times faster than Mash, its main competitor.\n\nAvailability and Implementationhttps://github.com/refresh-bio/kmer-db\n\nContactsebastian.deorowicz@polsl.pl\n\nSupplementary informationSupplementary data are available at publishers Web site

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