Felix
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Latest activity by Felix-
Felix commented,
Thank you, David!
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Felix commented,
Hi David Benjamin, I saw that the 1000g_pon.hg38.vcf.gz file is almost three years old. Is it still safe to use it with the current version of MuTect2? Best, Felix
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Felix commented,
Thank you very much for your help, Tiffany! I will prepare my files accordingly.
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Felix commented,
OK. Thank you, David!
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Felix commented,
Thank you for the update, Tiffany.
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Felix commented,
Thank you, David. This was very helpful! If I have samples where I cannot find out whether they are independent or not, it would be better to go with A)? Have a nice day, Felix
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Felix commented,
Hi, I am wondering, if there is a benefit in terms of performance using: A) MuTect2 in multi-sample mode vs. B) Manually joining all normal and all tumor samples for a patient and then running MuTe...
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Felix commented,
Hi Tiffany, Thank you for your reply! I have experimented with the original gnomAD VCF and also noticed the file size problem. It is a great idea to improve the speed by using the AF-only files. My...
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Felix created a post,
GenomAD files for MuTect2
AnsweredHello all, I am new to GATK and I am trying to perform somatic variant calling following this tutorial: https://gatk.broadinstitute.org/hc/en-us/articles/360035531132 I am confused which af-only-ge...