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output the 0|0 for PGT
In the output VCF of GenotypeGVCFs, there are
. for PGT, and no
0|0. When seeing a
. for PGT, I feel uncertain, as I don't know whether it is actually a
0|0 or missing data (e.g. due to zero useful coverage at the position). So it will be great if GenotypeGVCFs can also output the
Tested GATK version: V3.5