minimum coverage call

Question

rodrigopsav opened this issue 3 years ago · 4 comments

Hello,
Is there any flag to specify minimum coverage for variant calling?

Thanks

Answer 1 · 2022-03-06T14:28:43.000Z

Hi,

We have not exposed the --min_coverage option for users now, you might need to modify two lines(https://github.com/HKU-BAL/Clair3/blob/main/shared/param_p.py#L21 and https://github.com/HKU-BAL/Clair3/blob/main/shared/param_f.py#L18) to set the minimum coverage. We will add the min_coverage option in the next release.

Answer 2 · 2022-03-07T02:15:33.000Z

Thanks for asking, as we have collected multiple requests on this, we will expose --min_coverage in the next revision v0.1-r11.

Answer 3 · 2022-03-07T19:45:26.000Z

Thanks for the answer!

Answer 4 · 2022-04-04T11:48:40.000Z

Added in v0.1-r11.