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21 lines
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Text
21 lines
1,009 B
Text
Kraken is a system for assigning taxonomic labels to short DNA
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sequences, usually obtained through metagenomic studies. Previous
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attempts by other bioinformatics software to accomplish this task have
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often used sequence alignment or machine learning techniques that were
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quite slow, leading to the development of less sensitive but much faster
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abundance estimation programs. Kraken aims to achieve high sensitivity
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and high speed by utilizing exact alignments of k-mers and a novel
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classification algorithm.
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In its fastest mode of operation, for a simulated metagenome of 100 bp
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reads, Kraken processed over 4 million reads per minute on a single
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core, over 900 times faster than Megablast and over 11 times faster than
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the abundance estimation program MetaPhlAn. Kraken's accuracy is
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comparable with Megablast, with slightly lower sensitivity and very high
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precision.
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REFERENCE
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Wood DE, Salzberg SL
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Kraken: ultrafast metagenomic sequence classification using exact
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alignments.
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Genome Biology 2014, 15:R46.
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