Delete Missing Genotypes

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#1

How can i remove sites with missing more than 10% of the genotypes? Like the --geno flag from Plink.

#2

Any updates?

#3

filter_rows is the way to remove sites. I’d do this:

mt = hl.variant_qc(mt)
mt = mt.filter_rows(mt.variant_qc.call_rate > 0.90)
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#4

Thanks alot