An Integer Programming Formulation of the Minimum Common String Partition problem

Abstract

We consider the problem of finding a minimum common partition of two strings (MCSP). The problem has its application in genome comparison. MCSP problem is proved to be NP-hard. In this paper, we develop an Integer Programming (IP) formulation for the problem and implement it. The experimental results are compared with the previous state-of-the-art algorithms and are found to be promising.