Pipeline to search for CRISPR-Cas systems.
Running with Docker
- Build your docker container
cd container/docker && docker build -t .
- Run your docker container docker run -it "/bin/bash"
#REFERENCES CRISPRDetect Biswas, A., Staals, R. H., Morales, S. E., Fineran, P. C. & Brown, C. M. CRISPRDetect: a flexible algorithm to define CRISPR arrays. BMC Genomics 17, 356 (2016)
MacSyFinder Prodigal GNU Parallel HMMER CRISPRCasFinder group (DEF and profiles) Banfield group (Cas14 sequences for HMM)