hwalinga / CRISPRCasFinder

A perl script allowing to identify CRISPR arrays and associated Cas proteins from DNA sequences

CRISPRCasFinder

CRISPRCasFinder is an updated, improved, and integrated version of CRISPRFinder and CasFinder.

References

The related publication is available at: https://doi.org/10.1093/nar/gky425

Further information are available at: https://crisprcas.i2bc.paris-saclay.fr.

Documentation

A more complete User Manual is available at the following link: https://crisprcas.i2bc.paris-saclay.fr/Home/DownloadFile?filename=CRISPRCasFinder_Viewer_manual.pdf.

Container

If you want to try CRISPRCasFinder without installing dependencies, The standalone version is also available as singularity container:

To run the container

singularity run shub://dcouvin/CRISPRCasFinder:4.2.18 -def General -cas -i my_sequence.fasta -keep

or download the image locally, and optionally rename it, then run it

singularity pull --name CRISPRCasFinder shub://dcouvin/CRISPRCasFinder:4.2.18 
./CRISPRCasFinder -def General -cas -i my_sequence.fasta -keep

For more information about singularity containers: https://www.sylabs.io/docs/