On learning strategies for evolutionary Monte Carlo
Statistics and Computing
Monte Carlo Strategies in Scientific Computing
Monte Carlo Strategies in Scientific Computing
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This paper employs three Evolutionary Monte Carlo EMC schemes to solve the Short Adjacent Repeat Identification Problem SARIP, which aims to identify the common repeat units shared by multiple sequences. The three EMC schemes, i.e., Random Exchange RE, Best Exchange BE, and crossover are implemented on a parallel platform. The simulation results show that compared with the conventional Markov Chain Monte Carlo MCMC algorithm, all three EMC schemes can not only shorten the computation time via speeding up the convergence but also improve the solution quality in difficult cases. Moreover, we observe that the performances of different EMC schemes depend on the degeneracy degree of the motif pattern.