Commenced in January 2007
Frequency: Monthly
Edition: International
Paper Count: 4

# permutation Related Publications

##### 4 BeamGA Median: A Hybrid Heuristic Search Approach

Abstract:

The median problem is significantly applied to derive the most reasonable rearrangement phylogenetic tree for many species. More specifically, the problem is concerned with finding a permutation that minimizes the sum of distances between itself and a set of three signed permutations. Genomes with equal number of genes but different order can be represented as permutations. In this paper, an algorithm, namely BeamGA median, is proposed that combines a heuristic search approach (local beam) as an initialization step to generate a number of solutions, and then a Genetic Algorithm (GA) is applied in order to refine the solutions, aiming to achieve a better median with the smallest possible reversal distance from the three original permutations. In this approach, any genome rearrangement distance can be applied. In this paper, we use the reversal distance. To the best of our knowledge, the proposed approach was not applied before for solving the median problem. Our approach considers true biological evolution scenario by applying the concept of common intervals during the GA optimization process. This allows us to imitate a true biological behavior and enhance genetic approach time convergence. We were able to handle permutations with a large number of genes, within an acceptable time performance and with same or better accuracy as compared to existing algorithms. Downloads 558
##### 3 New Scheme in Determining nth Order Diagrams for Cross Multiplication Method via Combinatorial Approach

Authors: haslinda Ibrahim, Sharmila Karim, Zurni Omar

Abstract:

In this paper, a new recursive strategy is proposed for determining $\frac{(n-1)!}{2}$ of $n$th order diagrams. The generalization of $n$th diagram for cross multiplication method were proposed by Pavlovic and Bankier but the specific rule of determining $\frac{(n-1)!}{2}$ of the $n$th order diagrams for square matrix is yet to be discovered. Thus using combinatorial approach, $\frac{(n-1)!}{2}$ of the $n$th order diagrams will be presented as $\frac{(n-1)!}{2}$ starter sets. These starter sets will be generated based on exchanging one element. The advantages of this new strategy are the discarding process was eliminated and the sign of starter set is alternated to each others.