3. Optimized Cluster-Enabled HMMER Searches

  1. El-Ghazali Talbi4 and
  2. Albert Y. Zomaya5
  1. John Paul Walters1,
  2. Joseph Landman2 and
  3. Vipin Chaudhary3

Published Online: 30 APR 2007

DOI: 10.1002/9780470191637.ch3

Grid Computing for Bioinformatics and Computational Biology

Grid Computing for Bioinformatics and Computational Biology

How to Cite

Walters, J. P., Landman, J. and Chaudhary, V. (2007) Optimized Cluster-Enabled HMMER Searches, in Grid Computing for Bioinformatics and Computational Biology (eds E.-G. Talbi and A. Y. Zomaya), John Wiley & Sons, Inc., Hoboken, NJ, USA. doi: 10.1002/9780470191637.ch3

Editor Information

  1. 4

    LIFL, University of Lille, INRIA, CNRS, Lille, France

  2. 5

    School of Information Technology, University of Sydney, Sydney, Australia

Author Information

  1. 1

    Institute for Scientific Computing, Wayne State University, Detroit, Michigan, USA

  2. 2

    Scalable Informatics LLC, Canton, Michigan, USA

  3. 3

    Department of Computer Science and Engineering, The State University of New York, Buffalo, New York, USA

Publication History

  1. Published Online: 30 APR 2007
  2. Published Print: 3 DEC 2007

ISBN Information

Print ISBN: 9780471784098

Online ISBN: 9780470191637

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Keywords:

  • Protein sequence analysis tools;
  • multiple sequence alignment (MSA);
  • high performance computing (HPC) strategies

Summary

This chapter contains sections titled:

  • Introduction

  • Background

  • Techniques for Accelerating Hmmer

  • Conventional CPU Optimizations

  • Conclusions

  • References