Among-site rate variation
Fatemeh Vafaee, György Turán, Peter C. Nelson, Tanya Y. Berger-Wolf · 2014
This paper is concerned with proposing an elitist genetic algorithm which makes use of a new mutation scheme aimed to tackle both explorative and exploitative responsibilities of genetic operators. The proposed mutation scheme follows an approach similar to motif representation in biology, to derive the underlying pattern of highly-fit solutions discovered so far. This pattern is then used to derive mutation rates specified for every site along the encoded solutions. The site-specific rates are amended for every individual to balance the required explorative and exploitative power. The Markov chain model of the proposed method is also derived and used to analyze its convergence properties.