sgkit.variables.variant_genotype_count_spec#
- sgkit.variables.variant_genotype_count_spec = ArrayLikeSpec(default_name='variant_genotype_count', __doc__='\nThe number of observations for each possible genotype at each variant.\nCounts are sorted following the ordering defined in the VCF specification.\n\n- For biallelic, diploid genotypes the ordering is ``00``, ``01``, ``11``\n (homozygous reference, heterozygous, homozygous alternate).\n- For triallelic, diploid genotypes the ordering is ``00``, ``01``, ``11``,\n ``02``, ``12``, ``22``\n- For triallelic, triploid genotypes the ordering is ``000``, ``001``, ``011``,\n ``111``, ``002``, ``012``, ``112``, ``022``, ``122``, ``222``\n', kind={'i', 'u'}, ndim=2, dims=('variants', 'genotypes'))#
The number of observations for each possible genotype at each variant. Counts are sorted following the ordering defined in the VCF specification.
For biallelic, diploid genotypes the ordering is
00,01,11(homozygous reference, heterozygous, homozygous alternate).For triallelic, diploid genotypes the ordering is
00,01,11,02,12,22For triallelic, triploid genotypes the ordering is
000,001,011,111,002,012,112,022,122,222