Hybrid Parallel Implementation of Multiple Sequence Alignment Software ClustalW on Intel Xeon Phi

IVAILO, GEORGIEV and PLAMENKA, BOROVSKA and VESKA, GANCHEVA (2017) Hybrid Parallel Implementation of Multiple Sequence Alignment Software ClustalW on Intel Xeon Phi. In: Sixth International Conference on Advances in Computing, Electronics and Communication - ACEC 2017, 09-10 December, 2017, Rome, Italy.

[img]
Preview
Text
20180215_100932.pdf - Published Version

Download (675kB) | Preview
Official URL: https://www.seekdl.org/conferences/paper/details/9...

Abstract

This work is aimed to investigate and to improve the performance of multiple sequence alignment software ClustalW on the test platform EURORA at CINECA, for the case study of the influenza virus sequences. The objective is code optimization, porting, scaling and performance evaluation of parallel multiple sequence alignment software ClustalW for Intel Xeon Phi (the MIC architecture). For this purpose a parallel multithreaded optimization including OpenMP has been implemented and verified. The experimental results show that the hybrid parallel implementation utilizing MPI and OpenMP provides considerably better performance than the original code.

Item Type: Conference or Workshop Item (Paper)
Uncontrolled Keywords: bioinformatics, ClustalW, computer cluster EURORA, hybrid programming, high performance computing, multiple sequence alignment, parallel programming, performance.
Depositing User: Mr. John Steve
Date Deposited: 10 Mar 2019 09:30
Last Modified: 10 Mar 2019 09:30
URI: http://publications.theired.org/id/eprint/293

Actions (login required)

View Item View Item