Hi, I was validating some hail v02 code with v01 and am running into issues where hail v01 is saying some genotypes are missing while v02 says it is present, is this documented anywhere?
e.g. on the 1kg30variants vcf:
vds = hc.import_vcf(input_path, force_bgz=True) vds_filtered = vds.filter_variants_list([Variant.parse('1:881918:G:A')] # rsid rs35471880 vds_filtered.export_genotypes('vds-genotypes.csv', 's', export_missing=True) # shows NA19675, NA19679, NA20870, NA20872, NA20876
while for v02:
mt = hl.import_vcf(input_path).filter_rows(mt.rsid == 'rs35471880')) mt.filter_entries(hl.is_missing(mt.GT)) # is empty
Am I missing something?