We note that, for fixed r and r′, the likehood does not depend on the values of r and r′, so these terms can be dropped. For convenience, in our software implementation, we retain r and r′ in the likelihood calculation, but we find the results are invariant to the choice of r and r′. This is equivalent to considering the overall likelihood as the product of the conditional likelihoods P(gmi, gfi, gci | θ, disi, Ψi = 0) and P(gmi, gfi, gci | θ, disi, Ψi = 1) for the unphased (15 cell) and phased (16 cell) tables, respectively.