Specific chromosome run
See original GitHub issueDear Kishwar,
I am wondering how to run PEPPER variant calling on a BAM
file with only focusing for a specific chromosome like chr20
? Thanks.
Issue Analytics
- State:
- Created 2 years ago
- Comments:11 (4 by maintainers)
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@renzhiyang I didn’t resolve this issue yet. I think there is some TensorFlow version issue in DeepVariant-2.0.0 and above with TensorFlow installed on our HPC. PEPPER-r0.4 is working fine with DeepVariant-1.0.0.
Hi @tahashmi, thank you so much for your reply. I will have a try on PEPPER-r0.4.