Typo in VQSR tutorial

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warren kretzschmar

• April 20, 2020 12:43

Can you please provide
a) GATK version used

v4.1.4.0

I believe there is a typo in the commands in sections 1.C and 1.D in the tutorial https://gatk.broadinstitute.org/hc/en-us/articles/360035531112--How-to-Filter-variants-either-with-VQSR-or-by-hard-filtering

The resources arguments are defined incorrectly as

-resource hapmap,known=false,training=true,truth=true,prior=15:hapmap_3.3.hg38.vcf.g

I believe that intsead of a space, there should be a colon after `-resource` and instead of a colon, there should be a space before `hapmap`.

 

Best wishes

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• 

  Bhanu Gandham

  • April 22, 2020 15:41

  Hi warren kretzschmar

   

  Thank you for letting us know. We will make the change on our end.

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