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Multiple Sequence Alignments with Parallel Computing

Published on March 2014 by Charu Sharma, Pankaj Agrawal, Preeti Gupta
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International Conference on Advances in Computer Engineering and Applications
Foundation of Computer Science USA
ICACEA - Number 5
March 2014
Authors: Charu Sharma, Pankaj Agrawal, Preeti Gupta
d5824ea7-3020-439c-bb6a-5f9800da1496

Charu Sharma, Pankaj Agrawal, Preeti Gupta . Multiple Sequence Alignments with Parallel Computing. International Conference on Advances in Computer Engineering and Applications. ICACEA, 5 (March 2014), 16-21.

@article{
author = { Charu Sharma, Pankaj Agrawal, Preeti Gupta },
title = { Multiple Sequence Alignments with Parallel Computing },
journal = { International Conference on Advances in Computer Engineering and Applications },
issue_date = { March 2014 },
volume = { ICACEA },
number = { 5 },
month = { March },
year = { 2014 },
issn = 0975-8887,
pages = { 16-21 },
numpages = 6,
url = { /proceedings/icacea/number5/15642-1455/ },
publisher = {Foundation of Computer Science (FCS), NY, USA},
address = {New York, USA}
}
%0 Proceeding Article
%1 International Conference on Advances in Computer Engineering and Applications
%A Charu Sharma
%A Pankaj Agrawal
%A Preeti Gupta
%T Multiple Sequence Alignments with Parallel Computing
%J International Conference on Advances in Computer Engineering and Applications
%@ 0975-8887
%V ICACEA
%N 5
%P 16-21
%D 2014
%I International Journal of Computer Applications
Abstract

The growth of bioinformatics and computational biology industry, multiple sequence alignment (MSA) applications have become an important emerging workload. In spite of the large amount of recent attention given to the MSA software design, there has been little quantitative understanding of the performance of such applications on modern microprocessors and systems. In this paper we try to analyze performance and characteristics of MSA software from the perspective of multicore machines. We use several popular MSA programs employing a wide variety of alignment approaches. The basic workload characteristics and the efficiencies of various multicore machines features are examined . In order to mapping parallelism in multicore machines we try to explore different parallel programming approaches using threads and MPI

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Index Terms

Computer Science
Information Sciences

Keywords

Multiple Sequence Alignment Parallelism Multicore Machines Parallel Strategies.