A Hybrid OpenMP-MPI Parallelization of Structure Software

Provided by: International Journal of Computer Applications
Topic: Data Management
Format: PDF
Big data has an increasing impact on the use of bioinformatics software. One way to deal with this challenge is through parallel computing. Using the program structure as a case study, this paper investigates ways in which to counteract the challenges created by the growing datasets. This paper proposes an OpenMP-MPI hybrid parallelization of the MCMC steps, which are an integral part of structure and analyses the performance under various scenarios. The results indicate that the parallelization produce significant speedups over the serial version in all scenarios tested.

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