Figure 2

Ability of the method to recover known parameter values from simulated data. Black solid line: indicates the true parameter value of σ. Red dashed line: the log likelihood. The log likelihood is a measure of the support from the data for a parameter value. The estimated parameter value is the one which coincides with the maximum log likelihood. In this figure, the estimated parameter values are correct since they align with the black lines. The method and simulated data used the base model with the probability of recombination in multiply infected individuals set to 0.5 (details of the base model are given in the Methods section).