How to use Prokka for rapid prokaryotic features annotation
Prokka is one of useful software tools package that use for annotating bacterial, archaeal and viral genomes feature data both automatically and manually.
This tools use Perl for processing data and it only uses core Perl modules. but has quite a few external tool dependencies, some of which we can not bundle due to licence restrictions. Eventually we hope to have a public web-server version, and a version of it in the Galaxy Toolshed.
fast supports multi-threading hierarchical search databases simple to use no compulsory parameters bundled databases clean standards-compliant output files pipeline-friendly interface thorough finds tRNA, rRNA, CDS, sig_peptide, tandem repeats, ncRNA includes /gene and /EC_number where possible, not just /product traceable annotation sources via /inference tags useful produce files close-to-ready for submission to Genbank complete log file
It currently takes about 10 minutes on a quad Intel i7 for a typical 4 Mbp genome.