CUDA-MEME

Motif discovery software based on MEME algorithm for a single GPU device using CUDA programming model. At present, it only supports the OOPS and ZOOPS models.

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Topics

Sequence analysis Sequence sites, features and motifs

Details

Tool Type:: command-line tool
Operating Systems:: Linux
Programming Languages:: C
Added:: 12/18/2017
Last Updated:: 12/10/2018

Operations

Sequence motif discovery

Publications

Liu Y, Schmidt B, Liu W, Maskell DL. CUDA–MEME: Accelerating motif discovery in biological sequences using CUDA-enabled graphics processing units. Pattern Recognition Letters. 2010;31(14):2170-2177. doi:10.1016/j.patrec.2009.10.009.

DOI: 10.1016/j.patrec.2009.10.009

Documentation

User manual

https://cuda-meme.sourceforge.io/homepage.htm#installation

Links

Software catalogue

http://www.mybiosoftware.com/cuda-meme-2-73-mcuda-meme-3-0-12-motif-discovery-software-based-meme.html

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