GRASShopPER – de novo Assembly based on GPU Alignments

GRASShopPER

:: DESCRIPTION

GRASShopPER (GPU overlap GRaph ASSembler using Paired End Reads) is the novel assembly method that follows the approach of overlap–layout–consensus (OLC). In the method, a very efficient GPU implementation of the exact reads alignment algorithm has been used for calculating the scores and shifts on the arcs of the graph.

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::DEVELOPER

The Bioinformatics Group, Poznan University of Technology.

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

GRASShopPER

:: MORE INFORMATION

Citation

A. Swiercz, W. Frohmberg, M. Kierzynka, P. Wojciechowski, P. Zurkowski, J. Badura, A. Laskowski, M. Kasprzak, J. Blazewicz,
GRASShopPER. An algorithm for de novo assembly based on GPU alignments
PLOS ONE 13(8): e0202355. 2018

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