Reconstructing the shape of a tree from observed dissimilarity data
Advances in Applied Mathematics
Future Generation Computer Systems
Ant Colony Optimization
An Efficient Program for Phylogenetic Inference Using Simulated Annealing
IPDPS '05 Proceedings of the 19th IEEE International Parallel and Distributed Processing Symposium (IPDPS'05) - Workshop 7 - Volume 08
Ant algorithm for construction of evolutionary tree
CEC '02 Proceedings of the Evolutionary Computation on 2002. CEC '02. Proceedings of the 2002 Congress - Volume 02
Hi-index | 0.00 |
We introduce ACOPHY, a novel framework to apply Ant Colony Optimization (ACO) for phylogenetic reconstruction. ACOPHY overcomes a main drawback of other attempts to reconstruct phylogenies by defining a compact ACO graph that is nicely coupled with the tree space. The proposed graph allows the ants to walk globally through the tree space. Thus, ACOPHY can be generally applied to all well-known optimality criteria in phylogenetics. We compared ACOPHY with the traditional phylogenetic method PHYLIP and obtained slightly better results. This is promising since our current implementation of ACOPHY is still at the proof of concept stage. We list a number of points where ACOPHY can be improved. Once the improvements are integrated, we hope for competitive performance against other recent phylogenetic inference methods.