Filtermutectcalls doubt with the vcf file

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Estel

• October 30, 2023 13:36

Good morning, 

I'm using filtermutectcalls after mutect2, and I have some doubts with my ouput file.

- What are the exactly mening of the tumor and normal columns, inside the rows I know that there are different values representing some aspects, but in the GT field I have 0/1 in the normal column (in all the rows) and 0/0 in the tumor sample.

Is this possible, I thought that that shourd be at the opposite way, and the command line and the files are good.

Thanks

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  Gökalp Çelik

  • October 30, 2023 15:17

  Hi Estel

  Can you elaborate more about the issue that you are seeing with your tumor and normal results? 

  Were you expecting a mutation in the tumor but not in the normal where you observe this result?

  Can you share a picture of the region as well as the resulting VCF line?

  Regards. 

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  Estel

  • November 07, 2023 11:23

  Hi! I already solved the problem it was a missundersanding, thanks!

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