ABC-MK

MKtest.jl is a Julia package including a fast Approximate Bayesian Computation version of the McDonald-Kreitman test (ABC-MK) presented in Uricchio et al. (2019). The new ABC-MK implementation significantly improves the efficiency of the population genetics inferences. Following Uricchio et al.(2019), the analytical estimations were used to explore the effect of background selection and selective interference on weakly beneficial alleles. Nonetheless, we developed a more straightforward and computationally efficient ABC-based inference procedure that accounts for the DFE of deleterious and beneficial alleles and partial recombination between selected genomic elements. Our approach estimates $\alpha$, $\alpha_W$, $\alpha_S$, and the Gamma distribution DFE parameters.

In addition, the package automatizes other MK-like analyses parsing polymorphic and divergence data as well as including several extensions such as Grapes, aMK, imputedMK or fwwMK.

See the documentation for details.