KMC 3: counting and manipulatingk-mer statistics

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Abstract

Summary:

Counting all k-mers in a given dataset is a standard procedure in many bioinformatics applications. We introduce KMC3, a significant improvement of the former KMC2 algorithm together with KMC tools for manipulating k-mer databases. Usefulness of the tools is shown on a few real problems.

Availability and implementation:

Program is freely available at http://sun.aei.polsl.pl/REFRESH/kmc.

Contact:

sebastian.deorowicz@polsl.pl

Supplementary information:

Supplementary data are available at Bioinformatics online.

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