Hi, I am new to genotype imputations using low coverage data and I am a bit confused on how it works. I am using a took called glimpse to impute variants from a reference panel. The question is, with low-coverage WGS is it impossible to discover novel variants? Since I am using glimpse i am assuming it's basically filling in variants based on known haplotypes and haplotypes seen in my data.

If that's the case how exactly does glimpse generate a vcf file?

Thanks.