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Publication Detail
Grow and graft a better CUDA pknotsRG for RNA pseudoknot free energy calculation
  • Publication Type:
    Conference
  • Authors:
    Langdon WB, Harman M
  • Publication date:
    11/07/2015
  • Pagination:
    805, 810
  • Published proceedings:
    GECCO 2015 - Companion Publication of the 2015 Genetic and Evolutionary Computation Conference
  • ISBN-13:
    9781450334884
  • Status:
    Published
Abstract
Grow and graft genetic programming greatly improves GPGPU dynamic programming software for predicting the minimum binding energy for folding of RNA molecules. The parallel code inserted into the existing CUDA version of pknots was "grown" using a BNF grammar. On an nVidia Tesla K40 GPU GGGP gives a speed up of up to 10 000 times. Copyright is held by the owner/author(s).
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