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March 2020
Parallel tiled cache and energy efficient codes for O ( n 4 ) RNA folding algorithms
- Marek Palkowski,
- Wlodzimierz Bielecki
Journal of Parallel and Distributed Computing (JPDC), Volume 137, Issue CPages 252–258https://doi.org/10.1016/j.jpdc.2019.12.007
Abstract
In this paper, we consider two O ( n 4 ) RNA folding algorithms, Zuker’s recurrence and the maximum expected accuracy prediction (MEA), which are challenging dynamic programming tasks to optimize because they are computationally ...
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Dynamic programming code can be represented with the polyhedral model.
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