Roary

Roary is a high-speed standalone pan genome pipeline, which takes annotated assemblies in GFF3 format (produced by e.g. Prokka) and calculates the pan genome.

• Roary
  • License
  • Available
  • Usage
  • More information

License

Free to use and open source under GNU GPLv3.

Available

• Puhti: 3.13.0

Usage

On Puhti, Roary should be executed as a batch job. An interactive batch job for running Roary can be started with the command:

sinteractive -i 

To use Roary, load the module using the command:

module load roary

After that, you can launch Roary with the command roary. For example:

roary -f ./demo -e -n -v ./gff/*.gff

More information

• Roary home page

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