This is a placeholder for a document in progress.
@Geraldine_VdAuwera , How much will it take to have a working example for ****(How to) Run Spark-enabled GATK tools on a local multi-core machine****
Same answer as to your Q on the other doc -- it's not a priority right now and I can't say when it will become one.
ok, I am on a project which uses GATk a lot, but I need to have on spark.
It would be cool to see this document.
Thanks for the post. We are a small team and there are some other higher priorities before getting to this. This is on the list though
also eager to try this.
a best practice clone of germline SNP and indels with spark would really be great for those among us who cannot cloud it and currently suffer from the lack of parallelisation.
Thanks in advance...
Hope this page can be updated soon. Most importantly, how to setup multi-threading settings so that GATK 4 will not simply take all cores...