The ant colony optimization meta-heuristic
New ideas in optimization
Partitioned optimization algorithms for multiple sequence alignment
AINA '06 Proceedings of the 20th International Conference on Advanced Information Networking and Applications - Volume 02
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Multiple sequence alignment is a key process in today's biology, and finding a relevant alignment of several sequences is much more challenging than just optimizing some improbable evaluation functions. Our approach for addressing multiple sequence alignment focuses on the building of structures in a new graph model: the factor graph model. This model relies on block-based formulation of the original problem, formulation that seems to be one of the most suitable ways for capturing evolutionary aspects of alignment. The structures are implicitly built by a colony of ants laying down pheromones in the factor graphs, according to relations between blocks belonging to the different sequences.