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
  • Support
  • More information

License

Free to use and open source under GNU GPLv3.

Available

• Roihu-CPU: 3.13.0, via the bio-apps module.

Usage

Roary is part of the bio-apps collection on Roihu. Load the bio-apps module tree and then the Roary module:

module load bio-apps/v202603
module load roary/3.13.0

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

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

Run Roary in an interactive session or as a batch job, not on the login node. An interactive session can be started with:

sinteractive -i

See creating a batch job script for Roihu for more information about running batch jobs.

Support

CSC Service Desk

More information

• Roary home page

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