sPEGG: high throughput eco-evolutionary simulations on commodity graphics processors
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چکیده
Integrating population genetics into community ecology theory is a major goal in ecology and evolution, but analyzing the resulting models is computationally daunting. Here we describe sPEGG (simulating Phenotypic Evolution on General Purpose Graphics Processing Units (GPGPUs)), an open-source, multi-species forward-time population genetics simulator. Using a single commodity GPGPU instead of a single central processor, we find sPEGG can accelerate eco-evolutionary simulations by a factor of over 200, comparable to performance on a small-to-medium sized computer cluster. keywords: forward-time population genetics models; computational biology; eco-evolutionary dynamics; parallel computing; GPU; individual-based models; CUDA
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تاریخ انتشار 2016