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.
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| http://dx.doi.org/10.1093/bioinformatics/bty610 | DOI Listing |
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