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Russel88 / CRISPRCasTyper

CCTyper: Automatic detection and subtyping of CRISPR-Cas operons
https://typer.crispr.dk
MIT License
89 stars 16 forks source link

Expose minced options #26

Closed jimmyliu1326 closed 2 years ago

jimmyliu1326 commented 2 years ago

Hello,

Is it possible to make the minced options available when calling cctyper ? Options like -minNR, -minRL, etc. are very useful when it comes to optimizing CRISPR array annotations. I have noticed that certain repeats are missed because the array did not carry the minimum number of repeats required.

Cheers, Jimmy

Russel88 commented 2 years ago

Hi Jimmy,

Good idea. I have now included that option in the new version 1.6.3. It is not on conda yet, but if you have cctyper 1.6.2 installed via conda, you can run the following in your conda env to upgrade to 1.6.3: python -m pip install cctyper --upgrade

Cheers, Jakob