Kraken pipeline

Kraken specifications


Unique identifier OMICS_01057
Name Kraken
Software type Toolkit/Suite
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS
Programming languages R
License GNU General Public License version 2.0
Computer skills Advanced
Stability Stable
Source code URL
Maintained Yes


  • Minion
  • Reaper
  • Sequence Imp
  • Tally


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  • person_outline Anton Enright <>

Publication for Kraken

Kraken IN pipeline

PMCID: 4094381
PMID: 25013948
DOI: 10.1371/journal.pone.0101813

[…] tree using the phylip package [23]., in the previously published numbering scheme [21] for the imp family, imp-1 was chosen as the reference sequence. each imp sequence was compared to the reference sequence imp-1, and the amino acid differences relative to imp-1 were used to construct a mutation profile. by comparing the mutation profiles of all imp sequences, proteins which share mutations […]

Kraken institution(s)
EMBL – European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK; National Laboratory of Genomics for Biodiversity (Langebio), Cinvestav, Irapuato, Guanajuato, Mexico
Kraken funding source(s)
Supported by the EU FP7 (SIROCCO, LSHG-CT2006-037900) and BBSRC UK (BB/01589X/1).

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