We have introduced a function, getVariantCalls, into GoogleGenomics, that has
the same interface as getVariants, but returns a VRanges with genotype content for all samples.
The function has only been tested against the 1000 genomes variant datasets, and
at present does not acquire call-related information beyond the genotype, and does not
address phasing information. The next version will address some of these limitations.
We would be interested to hear from users with related requirements.
install_github("vjcitn/GoogleGenomics", ref="variantcalls") # will get the branch with the new function