PrecisionFDA, a secure cloud-based collaborative platform for advancing regulatory science of analysis of large biological datasets, has won a 2019 FedHealthIT Innovation award. To learn more about the platform, and how it might support your work, visit: https://go.usa.gov/xmMuC.
I found precisonFDA to be useful, but there were some caveats. For example, if you use their main functions for human data, I think you have to use the "1" chromosome nomenclature instead of the "chr1" chromosome nomenclature.
If it helps, I have some pointers (and results of analysis with my own samples) here: