The khmer software package: enabling efficient nucleotide sequence analysis

Abstract

<ns3:p>The khmer package is a freely available software library for working efficiently with fixed length DNA words, or k-mers. khmer provides implementations of a probabilistic k-mer counting data structure, a compressible De Bruijn graph representation, De Bruijn graph partitioning, and digital normalization. khmer is implemented in C++ and Python, and is freely available under the BSD license at <ns3:ext-link xmlns:ns4="http://www.w3.org/1999/xlink" ext-link-type="uri" ns4:href="https://github.com/dib-lab/khmer/">https://github.com/dib-lab/khmer/</ns3:ext-link>.</ns3:p>