MT_badr

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MT_badr
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  • @davidben Hi David, regarding my previous problem not finding a suitable AF germline resource for mm10 i am trying to create one using the SNP VCF provided by the sanger ftp. Is the script you used to create the germline resource in Humans is the mu…
  • > @claire1011 said: > Hi team, > I am running Mutect 2 on mouse data, may I ask how can I get these two files for my data? > 1. the input .vcf file for --germline-resource (eg. resources/chr17_af-only-gnomad_grch38.vcf.gz) > 2. …
  • @davidben i used the avilable mm10-db137 vcf file under the argument ( --germline-resource) before i noticed it's not the right file to use. I am not sure what exactly it did filter or how to get the right AF file right now or if it's possible to e…
  • > @davidben said: > @MT_badr The critical thing is that the germline resource must contain an `AF` (population allele frequency) INFO field annotation. I suppose these are inbred mouse models for which population allele frequencies are essen…