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OSWALD: OpenCL Smith-Waterman on Altera’s FPGA for Large Protein Databases
(SAGE Publications, 2018-05)
The well-known Smith–Waterman algorithm is a high-sensitivity method for local sequence alignment. Unfortunately, the Smith–Waterman algorithm has quadratic time complexity, which makes it computationally demanding for ...
Implementación del algoritmo de Smith - Waterman utilizando instrucciones SIMD mediante OPENMP
(Universidad Nacional de San Antonio Abad del CuscoPE, 2016)
El presente trabajo aborda el problema de acelerar la ejecución del algoritmo de Smith-Waterman haciendo uso de las instrucciones vectoriales disponibles en las CPU modernas. Como ejemplo de implementaciones de Smith-Waterman ...
SWIFOLD: Smith-Waterman Implementation on FPGA with OpenCL for long DNA sequences
(BioMed Central, 2018-02)
Background: The Smith-Waterman (SW) algorithm is the best choice for searching similar regions between two DNA or protein sequences. However, it may become impracticable in some contexts due to its high computational ...