Kraken swMATH ID: 36898 Software Authors: Derrick E Wood; Steven L Salzberg Description: Kraken: ultrafast metagenomic sequence classification using exact alignments. Kraken is an ultrafast and highly accurate program for assigning taxonomic labels to metagenomic DNA sequences. Previous programs designed for this task have been relatively slow and computationally expensive, forcing researchers to use faster abundance estimation programs, which only classify small subsets of metagenomic data. Using exact alignment of k-mers, Kraken achieves classification accuracy comparable to the fastest BLAST program. In its fastest mode, Kraken classifies 100 base pair reads at a rate of over 4.1 million reads per minute, 909 times faster than Megablast and 11 times faster than the abundance estimation program MetaPhlAn. Kraken is available at http://ccb.jhu.edu/software/kraken/. Homepage: http://ccb.jhu.edu/software/kraken/ Related Software: MetaProb; oblr; GraphBin; CLARK; Mash; GAGE; Bowtie 2; MetaPhlAn; DESMAN; panX; Sigma; SPARSE; MALT; Taxator-tk; NNDB; GitHub; Pgmpy; SciPy; GTDB-Tk; CheckM Cited in: 6 Documents all top 5 Cited by 20 Authors 2 Lin, Yu 2 Mallawaarachchi, Vijini G. 1 Achtman, Mark 1 Alikhan, Nabil-Fareed 1 Chikhi, Rayan 1 Luhmann, Nina 1 Medvedev, Paul 1 Oliver, Carlos G. 1 Pellegrina, Leonardo 1 Pizzi, Cinzia 1 Ponty, Yann 1 Quince, Christopher 1 Rahman, Amatur 1 Reinharz, Vladimir 1 Sarrazin-Gendron, Roman 1 Vandin, Fabio 1 Waldispühl, Jérôme 1 Wickramarachchi, Anuradha S. 1 Yao, Hua-Ting 1 Zhou, Zhemin Cited in 0 Serials Cited in 2 Fields 6 Biology and other natural sciences (92-XX) 1 Combinatorics (05-XX) Citations by Year