A generic and accessible individual-based implementation of the Dynamic Energy Budget theory
Now published and freely accessible:
Martin B, Zimmer EI, Grimm V and Jager T (2012). Dynamic Energy Budget theory meets individual-based modelling: a generic and accessible implementation. Methods in Ecology and Evolution 3:445-449. DOI 10.1111/j.2041-210X.2011.00168.x
Below you can find the DEB-IBM implementation in Netlogo, the user manual, and the model description using the ODD protocol.
DEB_IBM-model (v3) Same as v2 but compatible with NetLogo 6
(right click and “save link as”, then remove the “.pdf” or “.txt” and replace with “.nlogo”. See instructions for downloading NetLogo in the user manual.)
DEB_IBM model (v2) Since the publication of DEB-IBM the parameter set for Daphnia magna has been updated in add_my_pet. This new version includes the updated parameter set. Note the figures in the User Manual correspond with the older Daphnia parameter set found in v1.
Martin, B. T., T. Jager, R. M. Nisbet, T. G. Preuss, V. Grimm. (in press) Limitations of extrapolating toxic effects on reproduction to the population level . Ecological Applications Download the Netlogo file of the DEB-IBM model used for the paper. For NetLogo 6 use this file.
Martin, B. T., T. Jager, R. M. Nisbet, T. G. Preuss, M. Hammers-Wirtz, V. Grimm. (2013)Extrapolating ecotoxicological effects from individuals to populations: A generic approch based of Dynamic Energy Budget theory and Individual-Based Modelling. Ecotoxicology 22: 574-583
Martin, B. T., T. Jager, R. M. Nisbet, T. G. Preuss, V. Grimm. (2013) Predicting population dynamics from the properties of individuals: a cross level tests of Dynamic Energy Budget theory. American Naturalist 181: 506-519
These models correspond with the examples from section 4.2 “Guide to adapting the model” in the user manual.
4.2.2 “Daphnia reproduction”
4.2.4 “Spatial dynamics”