Design of Complex Experiments Using Mixed Integer Linear Programming

Abstract: Over the past few decades, neuroscience experiments have become increasingly complex and naturalistic. Experimental design has in turn become more challenging, as experiments must conform to an ever-increasing diversity of design constraints. In this article we demonstrate how this design process can be greatly assisted using an optimization tool known as Mixed Integer Linear Programming (MILP). MILP provides a rich framework for incorporating many types of real-world design constraints into a neuroimaging experiment. We introduce the mathematical foundations of MILP, compare MILP to other experimental design techniques, and provide four case studies of how MILP can be used to solve complex experimental design challenges.