Prokka
- Simon Alexander
Owned by Simon Alexander, created
Overview
Prokka used for rapid prokaryotic genome annotation. Whole genome annotation is the process of identifying features of interest in a set of genomic DNA sequences, and labelling them with useful information. Prokka is a software tool to annotate bacterial, archaeal and viral genomes quickly and produce standards-compliant output files.
Using
Use the module name prokka to discover versions available and to load the application.
Multicore
The prokka command can run using multiple cores, please see the --cpus option from calling prokka -h for more details.
From our observations, you need to explicitly set this value to utilize all the cpus-per-task that you request. For example:
[]$ salloc -A <project-name> -t 1:00:00 -c 16
...
[]$ prokka <filename>.fasta --compliant --cpus 16