Chaos inspired Particle Swarm Optimization with Levy Flight for Genome Sequence Assembly

Abstract

With the advent of Genome Sequencing, the field of Personalized Medicine has been revolutionized. From drug testing and studying diseases and mutations to clan genomics, studying the genome is required. However, genome sequence assembly is a very complex combinatorial optimization problem of computational biology. PSO is a popular metaheuristic swarm intelligence optimization algorithm, used to solve combinatorial optimization problems. In this paper, we propose a new variant of PSO to address this permutation-optimization problem. PSO is integrated with the Chaos and Levy Flight (A random walk algorithm) to effectively balance the exploration and exploitation capability of the algorithm. Empirical experiments are conducted to evaluate the performance of the proposed method in comparison to the other variants of the PSO proposed in the literature. The analysis is conducted on four DNA coverage datasets. The conducted analysis demonstrates that the proposed model attain a better performance with better reliability and consistency in comparison to others competitive methods in all cases.