Abstract
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 https://github.com/dib-lab/khmer/.
Original language | English (US) |
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Article number | 900 |
Journal | F1000Research |
Volume | 4 |
DOIs | |
State | Published - 2015 |
Keywords
- Bioinformatics
- Dna sequencing analysis
- K-mer
- Khmer
- Kmer
- Low-memory
- Online
- Streaming
ASJC Scopus subject areas
- Biochemistry, Genetics and Molecular Biology(all)
- Immunology and Microbiology(all)
- Pharmacology, Toxicology and Pharmaceutics(all)