This site is now read-only. You can find our new documentation site and support forum for posting questions here.
Be sure to read our welcome blog!
Sorry I'm not clear on one point:
Say I want to run VQSR on a set of 30 samples (exomes).
Do I need to run genotypeGVCFs on all 30 GVCF files, and then feed the single joint VCF
output into variantrecalibrator,
do I need to feed the 30 individual VCF files into variantrecalibrator?