You can find our new documentation site and support forum for posting questions here.
GATK Best practices versions
Hello dear GATK team,
I was wondering about the tool versions in the GATK WDL best practices, specifically should the versions (that is the docker image) from the options json file be used or is it considered stable to use the latest GATK?
For example I can see that for the germline workflow the description on the github page says that GATK 4.beta.5 or later for PairedSingleSampleWF can be used but in the PairedEndSingleSampleWf.gatk4.0.options.json I can see that a specific docker image was defined.
In addition, I have the same question regarding the tools which are not from the GATK package, STAR or BWA for example.
Thanks a lot!