We evaluated the sensitivity and specificity of our recombination detection routine as well as Merlin on our simulated data. When Merlin flags a crossover event between two markers, we extend the region this event may have occurred to the two flanking (phase resolved) heterozygous markers on the relevant parent. Our DuoHMM routine already produces the probability of a crossover event occurring between adjacent heterozygous markers on a parent. If an event occurs within one of these regions it is correctly detected, if not the flagged region is a false positive.
