CombineGVCF with a mix of gatk3 and gatk4 gvcf files.

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Yokofakun

• December 04, 2020 08:18
• Edited

Hi all,

I've been given a set of precomputed gvcfs files.

 

Some of those files were computed with gatk3.8 , while some other were computed with gatk4.*

 

Do you any any consequence (genotype, score, ...) of combining those gvcf with gatk3.8 (or gatk4.0) ?

Is there a simple way to convert a format/version to another ?

 

 

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  Genevieve Brandt (she/her)

  • December 04, 2020 17:39

  Hi Yokofakun, please see this article for more information on the topic: Can I use different versions of the GATK at different steps of my analysis?

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