• First create a conda env and the install requirements.txt after activating the environment

conda create -n crispr

• Make sure all files have all permissions

• Change this based on your requirements from benchmark.py.

  • num_guides,
  • guide_length,
  • pam, and
  • mismatches

• To execute

  conda activate crispr
  

• And then

./vcf-cas-offinder.py -i chr1.vcf.gz -r /refe-genome/full/path/ -t generated_sequences.txt -d G1