Linkage analysis with inbreeding

For computational reasons, linkage analysis of highly inbred pedigrees is often performed under the assumption that spouse pairs are genetically unrelated. A formulation of the likelihood of a pedigree which takes into account all of the genealogical information Ω, for an arbitrary relationship between a pair of spouses, is proposed. Lod scores at a recombination fraction of 0 for an inbred three-member nuclear family are presented.