A compound heterozygote is a pair of putatively deleterious variants on the same gene.
A proband variant is assigned the category InCompoundHeterozygote if both of the following are true:
The variant's functional annotations include at least one of the types in compound_heterozygote_functional_types.
The variant is in the same gene as another such variant.
The variants can be either homozygous or heterozygous. The trio analysis later determines whether a variant is putatively deleterious by examining the existing functional annotations associated with the variant.