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A Comparative Analysis of Parallel Computing Approaches for Genome Assembly

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Executive Summary

Over the last two decades, the authors have witnessed a tremendous growth of sequenced genomic data. However, the algorithms and computational power required to expeditiously process, classify, and analyze genomic data has lagged considerably. In bio-informatics, one of the most challenging and computationally intensive processes, which may take up to weeks of compute time, is the assembly of large size genomes. Several computationally feasible sequential assemblers have been devised and implemented to assist in the process. A few algorithms also have been parallelized to speed up the assembly process. However, very little has been done to thoroughly analyze such parallel algorithms using the specific metrics of parallel computing paradigm.

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