We would like to reduce the size of the output file when using --includeNonVariantSites. Can GenotypeGVCFs output in gVCF format when using --includeNonVariantSites?
Hi Carlos, this isn't currently possible but due to the large number of requests for such a feature, we've added it to the development roadmap. I'm not sure yet when it will become available but it sounds like it might be a priority for the near future. I'll try to find out more.
Thanks for the quick response. I'll keep an eye open for when the feature becomes available.