GPU MrBayes V3.1：用于蛋白质序列数据的图形处理单元上的 MrBayes。
GPU MrBayes V3.1: MrBayes on Graphics Processing Units for Protein Sequence Data.
机构信息
College of Computer and Control Engineering, Nankai University, Tianjin, China College of Software, Nankai University, Tianjin, China.
College of Computer and Control Engineering, Nankai University, Tianjin, China College of Software, Nankai University, Tianjin, China
出版信息
Mol Biol Evol. 2015 Sep;32(9):2496-7. doi: 10.1093/molbev/msv129. Epub 2015 May 26.
We present a modified GPU (graphics processing unit) version of MrBayes, called ta(MC)(3) (GPU MrBayes V3.1), for Bayesian phylogenetic inference on protein data sets. Our main contributions are 1) utilizing 64-bit variables, thereby enabling ta(MC)(3) to process larger data sets than MrBayes; and 2) to use Kahan summation to improve accuracy, convergence rates, and consequently runtime. Versus the current fastest software, we achieve a speedup of up to around 2.5 (and up to around 90 vs. serial MrBayes), and more on multi-GPU hardware. GPU MrBayes V3.1 is available from http://sourceforge.net/projects/mrbayes-gpu/.
我们展示了一个经过修改的 GPU（图形处理单元）版本的 MrBayes，称为 ta(MC)(3)（GPU MrBayes V3.1），用于对蛋白质数据集进行贝叶斯系统发育推断。我们的主要贡献是 1）利用 64 位变量，从而使 ta(MC)(3)能够处理比 MrBayes 更大的数据集；2）使用 Kahan 求和来提高准确性、收敛速度，从而提高运行时间。与当前最快的软件相比，我们的加速比最高可达 2.5 倍（与串行 MrBayes 相比最高可达 90 倍），在多 GPU 硬件上的加速比更高。GPU MrBayes V3.1 可从 http://sourceforge.net/projects/mrbayes-gpu/ 获取。
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