Comput Biol Chem - A hyper-heuristic for the Longest Common Subsequence problem.

Tópicos

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Resumo

The Longest Common Subsequence Problem is the problem of finding a longest string that is a subsequence of every member of a given set of strings. It has applications in FPGA circuit minimization, data compression, and bioinformatics, among others. The problem is NP-hard in its general form, which implies that no exact polynomial-time algorithm currently exists for the problem. Consequently, inexact algorithms have been proposed to obtain good, but not necessarily optimal, solutions in an affordable time. In this paper, a hyper-heuristic algorithm incorporated within a constructive beam search is proposed for the problem. The proposed hyper-heuristic is based on two basic heuristic functions, one of which is new in this paper, and determines dynamically which one to use for a given problem instance. The proposed algorithm is compared with state-of-the-art algorithms on simulated and real biological sequences. Extensive experimental reveals that the proposed hyper-heuristic is superior to the state-of-the-art methods with respect to the solution quality and the running-time.

Resumo Limpo

longest common subsequ problem problem find longest string subsequ everi member given set string applic fpga circuit minim data compress bioinformat among other problem nphard general form impli exact polynomialtim algorithm current exist problem consequ inexact algorithm propos obtain good necessarili optim solut afford time paper hyperheurist algorithm incorpor within construct beam search propos problem propos hyperheurist base two basic heurist function one new paper determin dynam one use given problem instanc propos algorithm compar stateoftheart algorithm simul real biolog sequenc extens experiment reveal propos hyperheurist superior stateoftheart method respect solut qualiti runningtim

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