Galaxy |

prokka (version 0.2)

Contigs to annotate:

Locus tag prefix:

Add 'gene' features for each 'CDS' feature:

Locus tag counter increment:

Force Genbank/ENA/DDJB compliance: --genes --mincontiglen 200 --centre XXX:

Locus tag prefix:

Genus name (will be used to aid annotation):

Species name:

Strain name:

Plasmid name or identifier:

Annotation mode:

Genetic code:

Overrides the annotation mode option if set to > 0

Gram:

Use genus-specific BLAST databases:

Improve gene predictions for highly fragmented genomes:

Fast mode - skip CDS /product searching:

Number of CPUs to use :

Minimum contig size [NCBI needs 200]:

Similarity e-value cut-off:

Enable searching for ncRNAs with Infernal+Rfam (SLOW!):

Don't run rRNA search:

Don't run tRNA search:

What it does

This wrapper runs prokka, a tool to rapidly annotate prokaryotic genomes. For more information see the tool's homepage: http://www.vicbioinformatics.com/software.prokka.shtml

License

prokka is developed by Torsten Seemann at Victorian Bioinformatics Consortium http://www.bioinformatics.net.au/. prokka is released under GPLv3 or later.

This wrapper is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.

This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.

You should have received a copy of the GNU General Public License along with this program. If not, see http://www.gnu.org/licenses/.