Sigve Nakken

Great, thanks for info! I will have a look shortly. Likely a bug - will keep you posted when I have it fixed. kind regards, Sigve

Hi @yashcrux , I've found the bug in the code. The reason it happens is because your input VCF does not have any variants that are designated as `PASS` in...

Hi Ridwan, Thanks for detecting this. I will incorporate this fix in the next version. Kind regards, Sigve

Hi @yashcrux, It is a bug that it crashes when there is no `PASS` variants. The program should simply issue a statement/warning that no high-quality variants were found, and thus...

Thanks a lot for the follow-up, Elena. Fix in the making! 😊 Kind regards, Sigve

exit silently when no PASS variants found - fix implemented in v2.2.5

@ridwan-shaikh , would you able to share a few VCF's where this bug occurs, so I have a test set to work with? best, Sigve

Fixed in v2.2.2

Dear @weichisyu, Thanks for your interest in PCGR, I am happy you find it useful:-) I will go through the MAF generation to see how we can populate the MAF...

Dear Weichi, I think your suggestion regarding feeding vcf2maf with the VEP-annotated VCF might be the best solution, I will try to set this up. best, Sigve