kraken
assigning taxonomic labels to short DNA sequences
Install
- All systems
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curl cmd.cat/kraken.sh
- Debian
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apt-get install kraken - Ubuntu
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apt-get install kraken - Kali Linux
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apt-get install kraken - Windows (WSL2)
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sudo apt-get updatesudo apt-get install kraken - Raspbian
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apt-get install kraken - Dockerfile
- dockerfile.run/kraken
kraken
assigning taxonomic labels to short DNA sequences
Kraken is a system for assigning taxonomic labels to short DNA sequences, usually obtained through metagenomic studies. Previous attempts by other bioinformatics software to accomplish this task have often used sequence alignment or machine learning techniques that were quite slow, leading to the development of less sensitive but much faster abundance estimation programs. Kraken aims to achieve high sensitivity and high speed by utilizing exact alignments of k-mers and a novel classification algorithm. In its fastest mode of operation, for a simulated metagenome of 100 bp reads, Kraken processed over 4 million reads per minute on a single core, over 900 times faster than Megablast and over 11 times faster than the abundance estimation program MetaPhlAn. Kraken's accuracy is comparable with Megablast, with slightly lower sensitivity and very high precision.