Difference between revisions of "Prokka"

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==Required Modules==
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==Environment Modules==
===Serial===
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* {{#var:app}}
 
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===Parallel (OpenMP)===
 
* intel
 
* {{#var:app}}
 
===Parallel (MPI)===
 
* intel
 
* openmpi
 
* {{#var:app}}
 
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==System Variables==
 
==System Variables==
* HPC_{{#uppercase:{{#var:app}}}}_DIR - installation directory
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* HPC_{{uc:{{#var:app}}}}_DIR - installation directory
 
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Latest revision as of 20:36, 10 June 2022

Description

prokka website  

Prokka is a software tool for the rapid annotation of prokaryotic genomes. A typical 4 Mbp genome can be fully annotated in less than 10 minutes on a quad-core computer, and scales well to 32 core SMP systems. It produces GFF3, GBK and SQN files that are ready for editing in Sequin and ultimately submitted to Genbank/DDJB/ENA.

Environment Modules

Run module spider prokka to find out what environment modules are available for this application.

System Variables

  • HPC_PROKKA_DIR - installation directory




Citation

If you publish research that uses prokka you have to cite it as follows:

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