We further investigated the null distribution of p-values for Scenario II where only part of the genealogy was known. We assumed only part of the genealogy known, and ϕped and ϕpost were computed based on the pedigree information and the pedigree plus multiallelic marker information of the last two generations. Under the null distribution, we performed the classical χ2 test and the corrected χ2 test with ϕact, ϕped, ϕest, and ϕpost for each simulated marker. Q – Q plots were used to present the null distribution of p-values.
