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arXiv · 1011.0597

Parallelization of Weighted Sequence Comparison by using EBWT

Shashank Srikant
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Abstract

The Extended Burrows Wheeler transform (EBWT) helps to find the distance between two sequences. Implementation of an existing algorithm takes considerable amount of time for small size sequences. In this paper, we give a parallel implementation of this algorithm using NVIDIA Compute Unified Device Architecture (CUDA). We have obtained, on an average, a 2X improvement in the performance.

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Shashank Srikant. 2011-01-29. Parallelization of Weighted Sequence Comparison by using EBWT. https://arxiv.org/abs/1011.0597

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