I have a Hail matrix table with variants and samples (h1) and a txt file from clinvar vcf. I would like to filter out the variants (row) that are not in the clinvar txt file but I am not sure how.
Hail matrix table is keyed on chr:pos and the array of alleles. I successfully imported txt file as hail table (no key) and tried to annotate h1 with this table then filter with the new field.
However, I don’t know how to key the txt file to be the same as h1 in order to annotate it then filter. Or, am I thinking it completely wrong?
Sorry for the basic question, I started Hail only recently, would greatly appreciate if someone has some idea for the situation.