KMC 2: fast and resource-frugal k-mer counting.
Identifieur interne : 001732 ( Main/Exploration ); précédent : 001731; suivant : 001733KMC 2: fast and resource-frugal k-mer counting.
Auteurs : Sebastian Deorowicz [Pologne] ; Marek Kokot [Pologne] ; Szymon Grabowski [Pologne] ; Agnieszka Debudaj-Grabysz [Pologne]Source :
- Bioinformatics (Oxford, England) [ 1367-4811 ] ; 2015.
Descripteurs français
- KwdFr :
- MESH :
English descriptors
- KwdEn :
- MESH :
- methods : Computational Biology, Sequence Alignment, Sequence Analysis, DNA.
- Algorithms, Animals, Humans, Software.
Abstract
Building the histogram of occurrences of every k-symbol long substring of nucleotide data is a standard step in many bioinformatics applications, known under the name of k-mer counting. Its applications include developing de Bruijn graph genome assemblers, fast multiple sequence alignment and repeat detection. The tremendous amounts of NGS data require fast algorithms for k-mer counting, preferably using moderate amounts of memory.
DOI: 10.1093/bioinformatics/btv022
PubMed: 25609798
Affiliations:
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Le document en format XML
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Its applications include developing de Bruijn graph genome assemblers, fast multiple sequence alignment and repeat detection. The tremendous amounts of NGS data require fast algorithms for k-mer counting, preferably using moderate amounts of memory.</div></front></TEI><affiliations><list><country><li>Pologne</li></country></list><tree><country name="Pologne"><noRegion><name sortKey="Deorowicz, Sebastian" sort="Deorowicz, Sebastian" uniqKey="Deorowicz S" first="Sebastian" last="Deorowicz">Sebastian Deorowicz</name></noRegion><name sortKey="Debudaj Grabysz, Agnieszka" sort="Debudaj Grabysz, Agnieszka" uniqKey="Debudaj Grabysz A" first="Agnieszka" last="Debudaj-Grabysz">Agnieszka Debudaj-Grabysz</name><name sortKey="Grabowski, Szymon" sort="Grabowski, Szymon" uniqKey="Grabowski S" first="Szymon" last="Grabowski">Szymon Grabowski</name><name sortKey="Kokot, Marek" sort="Kokot, Marek" uniqKey="Kokot M" first="Marek" last="Kokot">Marek Kokot</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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