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Prokka is a software tool for the rapid annotation of prokaryotic genomes.


  • Prokka home
  • Please cite Prokka: Seemann T. Prokka: rapid prokaryotic genome annotation. Bioinformatics. 2014 Jul 15;30(14):2068-9. PMID:24642063

Usage on Bridges-2

The Prokka dataset is available on Bridges-2 at /ocean/datasets/community/genomics/prokka. The PFAM database is also available, at /ocean/datasets/community/genomics/pfam.

To see what versions of Prokka are available and if there is more than one, which is the default, along with some help, type

module spider prokka

To use Prokka, include a command like this in your batch script or interactive session to load the Prokka module: (note ‘module load’ is case-sensitive):

module load prokka

Be sure you also load any other modules needed, as listed by the module spider prokka command.