Speaker
Mr
Luka Filipovic
(University of Montenegro)
Description
Computational phylogeny is a challenging even for the most powerful supercomputers. One of significant application in this area is Randomized Axelerated Maximum Likelihood (RAxML) which is used for sequential and parallel Maximum Likelihood based inference of large phylogenetic trees.
We choose 5 different genes, two real genes (part of D-loop and Cytochrome b of different European salmond fish species) both from mitochondrial genome and additional three designed genes in order to test reliability of constructed census phylogeny tree. Two of those “fake” genes were designed with phylogeny information similar to phylogeny of real genes while the third one was completely different. Using of multigene option of RAxML software we test contribution of each gene (percentage of base pares in tested genes) in terms of gene contribution in phylogeny tree construction. We additionally test contribution of gene position in analysis in terms of final results of phylogeny reconstruction.
This paper will also cover scalability results of multigene tests on high-performance computers for coarse and fine grained parallelization using MPI, Pthreads and hybrid version.
Primary author
Mr
Luka Filipovic
(University of Montenegro)
Co-authors
Dr
Bozo Krstajic
(University of Montenegro)
Dr
Mrdak Danilo
(University of Montenegro)
