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Scaling-up spatially-explicit ecological models using graphics processors

Van de Koppel, J. and Gupta, R. and Vuik, C. (2011) Scaling-up spatially-explicit ecological models using graphics processors. Ecological Modelling, 222, 3011-3019. ISSN 0304-3800.

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Official URL: http://dx.doi.org/10.1016/j.ecolmodel.2011.06.004

Abstract

How the properties of ecosystems relate to spatial scale is a prominent topic in current ecosystem research. Despite this, spatially explicit models typically include only a limited range of spatial scales, mostly because of computing limitations. Here, we describe the use of graphics processors to efficiently solve spatially explicit ecological models at large spatial scale using the CUDA language extension. We explain this technique by implementing three classical models of spatial self-organization in ecology: a spiral-wave forming predator-prey model, a model of pattern formation in arid vegetation, and a model of disturbance in mussel beds on rocky shores. Using these models, we show that the solutions of models on large spatial grids can be obtained on graphics processors with up to two orders of magnitude reduction in simulation time relative to normal pc processors. This allows for efficient simulation of very large spatial grids, which is crucial for, for instance, the study of the effect of spatial heterogeneity on the formation of self-organized spatial patterns, thereby facilitating the comparison between theoretical results and empirical data. Finally, we show that large-scale spatial simulations are preferable over repetitions at smaller spatial scales in identifying the presence of scaling relations in spatially self-organized ecosystems. Hence, the study of scaling laws in ecology may benefit significantly from implementation of ecological models on graphics processors. (C) 2011 Elsevier B.V. All rights reserved.

Item Type:Article
Institutes:Nederlands Instituut voor Ecologie (NIOO)
ID Code:9778
Deposited On:18 Nov 2011 01:00
Last Modified:31 Mar 2014 11:03

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