prokka¶
Input/Output type¶
- Input type:
fasta
- Output type:
None
Note
- Although the component doesn’t have an output channel it writes the results into the
publishDir
.
Parameters¶
centre
: sets the center to which the sequencing center id. Default: ‘UMMI’.kingdom
: Selects the annotation mode between Archaea, Bacteria, Mitochondria, Viruses. Default: Bacteria).genus
: Allows user to select a genus name. Default: ‘Genus’ (same as prokka). This also adds the use of the –usegenus flag to prokka.
Published results¶
results/annotation/prokka_<pid>/<sample_id>
: All the outputs from prokka will be available in these directories.
Published reports¶
None.
Default directives¶
prokka
:cpus
: 2container
: ummidock/prokkaversion
: 1.12