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Research Paper | Computer Science & Engineering | India | Volume 3 Issue 6, June 2014

Performance Analysis of Clustal W Algorithm on Linux Cluster

Swati Jasrotia | Salam Din

Abstract: Parallel version of bioinformatics applications can speed up the analysis of large-scale sequence data; especially about sequence alignments. Sharing of distributed idle computing resources and data with the use of parallel version softwares on high performance clusters is an emerging step. Moreover Linux based clusters are replacing the mainframe systems / supercomputers because of its cost effectiveness. In this paper; we provide the performance results of parallel version of ClustalW on Linux cluster with the help of an open source rocks toolkit. An easy to deploy; contract / expand and manage; and scalable; distributed environment is proposed and built for bioinformatics applications. Our experimental results show that multiple sequence alignment of protein sequences with ClustalW software on rocks distributed environment gives high efficiency and speedup. It also shows cluster platforms are excellent alternatives to access to supercomputing; due to its price to performance ratio.

Keywords: multiple sequence alignment, clustalw, linux cluster, high performance computing, parallel and distributed computing, speedup

Edition: Volume 3 Issue 6, June 2014,

Pages: 1884 - 1886