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Summary: Kmer‐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,… Click to show full abstract
Summary: Kmer‐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 <7 min (on a modern workstation), 26 times faster than Mash, its main competitor. Availability and implementation: https://github.com/refresh‐bio/kmer‐db and http://sun.aei.polsl.pl/REFRESH/kmer‐db. Supplementary information: Supplementary data are available at Bioinformatics online.
Journal Title: Bioinformatics
Year Published: 2019
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