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As a third approach, we consider maximization of the probability that two randomly chosen alleles from the offspring are not IBD and at least one of them descends from a native founder (Approach C).
The first is to maximize the probability that two alleles randomly chosen from the offspring population are not IBD and that at least one of them descended from a native founder (Approach C).
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We also considered the possibility of maximizing the conditional probability ϕ D that both alleles are not IBD, given that both descended from native founders (Approach D).
This is the probability that two randomly chosen alleles from the offspring are not IBD and are from native founders (Approach B).
That is, we want to maximize the probability ϕ B that both alleles are not IBD and descended from native founders (Approach B), or the probability ϕ C that both alleles are not IBD and at least one of them descended from native founders (Approach C).
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