GenotypeGVCFs output with additional annotation
Thank you guys for developing & maintaining such a good software!
I'm actually just starting to use GATK with Haplotypecaller. For me, there's a very useful annotation "StrandBiasBySample" or "StrandAlleleCountsBySample" that gives all the alignment information for a variant. It can be generated by HC, but after joint genotyping, it's just gone.
There is a previous post asking about how to add this annotation to the final vcf, and Sheila mentioned she's already put in a request for adding this.
So I'm just wandering, have you guys fixed this in one of the nighty build?