I have been asked to try out your GATK-dragen pipeline. I found this and related pages:
And have been reading the docs to try and figure out if I can either:
1.) Get a list of the commands recommended to reproduce this pipeline on our system or
2.) Run the pipeline on my own system (ie. Not on Terra).
I have downloaded the .wdl from here:
but am total newbie when it comes to .wdl. Do you have any tips/tutorials/ideas about how I should go about testing the pipeline without having access to terra (or other cloud alternatives). For example, where should I source the containers and references that are needed?
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