ICTACT Journal on Soft Computing

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Enhanced Bio-Inspired Algorithm for Constructing Phylogenetic Tree


Affiliations
1 Department of Computer Applications, National Institute of Technology, Tiruchirappalli, India
     

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This paper illustrates an enhanced algorithm based on one of the swarm intelligence techniques for constructing the Phylogenetic tree (PT), which is used to study the relationship between species. The main scheme is to formulate a PT, an NP- complete problem through an evolutionary algorithm called Artificial Bee Colony (ABC). The tradeoff between the accuracy and the computational time taken for constructing the tree makes way for new variants of algorithms. A new variant of ABC algorithm is proposed to promote the convergence rate of general ABC algorithm through recommending a new formula for searching solution. In addition, a searching step has been included so that it constructs the tree faster with a nearly optimal solution. Experimental results are compared with the ABC algorithm, Genetic Algorithm and the state-of-the-art techniques like unweighted pair group method using arithmetic mean, Neighbour-joining and Relaxed Neighbor Joining. For results discussion, we used one of the standard dataset Treesilla. The results show that the Enhanced ABC (EABC) algorithm converges faster than others. The claim is supported by a distance metric called the Robinson-Foulds distance that finds the dissimilarity of the PT, constructed by different algorithms.

Keywords

Phylogenetic Trees, Artificial Bee Colony Algorithm, Edit Distance, Converges Faster, Genetic Algorithm.
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  • Enhanced Bio-Inspired Algorithm for Constructing Phylogenetic Tree

Abstract Views: 473  |  PDF Views: 2

Authors

J. Jayapriya
Department of Computer Applications, National Institute of Technology, Tiruchirappalli, India
Michael Arock
Department of Computer Applications, National Institute of Technology, Tiruchirappalli, India

Abstract


This paper illustrates an enhanced algorithm based on one of the swarm intelligence techniques for constructing the Phylogenetic tree (PT), which is used to study the relationship between species. The main scheme is to formulate a PT, an NP- complete problem through an evolutionary algorithm called Artificial Bee Colony (ABC). The tradeoff between the accuracy and the computational time taken for constructing the tree makes way for new variants of algorithms. A new variant of ABC algorithm is proposed to promote the convergence rate of general ABC algorithm through recommending a new formula for searching solution. In addition, a searching step has been included so that it constructs the tree faster with a nearly optimal solution. Experimental results are compared with the ABC algorithm, Genetic Algorithm and the state-of-the-art techniques like unweighted pair group method using arithmetic mean, Neighbour-joining and Relaxed Neighbor Joining. For results discussion, we used one of the standard dataset Treesilla. The results show that the Enhanced ABC (EABC) algorithm converges faster than others. The claim is supported by a distance metric called the Robinson-Foulds distance that finds the dissimilarity of the PT, constructed by different algorithms.

Keywords


Phylogenetic Trees, Artificial Bee Colony Algorithm, Edit Distance, Converges Faster, Genetic Algorithm.

References