miqoGraph

Fitting admixture graphs using mixed-integer quadratic optimization. Abstract Admixture graphs represent the genetic relationship between a set of populations through splits, drift and admixture. In this paper we present the Julia package miqoGraph , which uses mixed-integer quadratic optimization to fit topology, drift lengths, and admixture proportions simultaneously. Inference of topology is particularly powerful, with integer optimization automating what is usually an arduous manual process. Availability https: github.com juliayyan PhylogeneticTrees.jl Contact jyyan@mit.edu.