William B. Langdon
ABSTRACT
BarraCUDA uses CUDA graphics cards to map DNA reads to the human genome. Previously its software source code was genetically improved for short paired end next generation sequences. On longer noisy epigenetics strings using nVidia Titan and twin Tesla K40 the same GI-ed code is more than 3 times faster than bwa-meth on an 8 core CPU.
- P. Klus et al. BarraCUDA. BMC Res Nts, 5(27), 2012.Google Scholar
- W. B. Langdon. Genetically improved software. Handbook GP Applications, pp181--220. Springer, 2015.Google ScholarCross Ref
- W. B. Langdon, Brian Y. H. Lam, J. Petke, and M. Harman. Improving CUDA DNA analysis software with genetic programming. In GECCO 2015, pp1063--70 Google ScholarDigital Library
Index Terms
- Benchmarking Genetically Improved BarraCUDA on Epigenetic Methylation NGS datasets and nVidia GPUs
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