This electronic laboratory for work on the Dynamic Energy Budget theory is a site where you can download software that may be useful for research and education purposes. It aims to facilitate the application of the theory, and to stimulate collaboration.
Like a real laboratory, we have some artwork on the wall and a library.
| artwork | The three-dimensional state space plot, presented in the artwork, illustrates the asymptotic behaviour of a tri-trophic chain in a chemostat. Click on it and it moves. You want to see a close up? |
| We also have a poem | |
| DEBlib | Collection of papers in which DEB theory plays a substantial role |
| DEBtool | is a package, written in Matlab and
Octave,
that can be used to study the ecophysiological behaviour of animals,
plants, algae, microorganisms and symbioses in a graphical way.
Effects of chemicals can be studied.
It deals with metabolism and interactions between individuals and species;
it also allows to fit DEB models to your data.
Script-files are included that produce the figures of the
DEB-book.
Download DEBtool_O
(Octave version 3.2.4, 810 kb, 2013/08/22)
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| DEBtox | Matlab scripts for the simultaneous analysis of multiple endpoints in ecotoxicity tests |
| DEBibm | Implementation of the standard DEB model in DEBibm in NetLogo to simulate population dynamics. Download Background information. |
| DEBlib | library and computational framework for the solution of problems in Dynamic Energy Budget (DEB) theory, dealing with biological systems from the organism to the ecosystem level. |
| PlotReader | extracts coordinates from plots of data, written by Jorn Bruggeman. |
| Add_my_pet | Collection of data and parameters values of the standard DEB model for a wide variety of species (including representatives of most large phyla and of all 13 chordate classes) and the Matlab-files that obtain the parameters from data using debtool.
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| Phyto_pars | Collection of values for the parameters of the Monod parameters for freshwater phytoplankton species. Method . |
| Errata | Errata for the DEB-book. Those for the 2nd edition are no longer maintained. Go to the champion list for error-spotting. | ||||||||||||
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| Summary of concepts | Presentation and discussion of DEB concepts, which follows the chapters and sections of the DEB-book. It avoids the use of mathematics and also tests against experimental data. | ||||||||||||
| Comments | Explanations and extensions of the DEB-book; they follow the chapters and sections of this book. The comments on 2nd edition are no longer maintained. | ||||||||||||
| DEB notation | This document explains the notation that is used in DEB theory, in the hope that it helps to standardise it for further development of de theory. | ||||||||||||
| Micro-lectures | Collection of some 500 PowerPoint slides with short comments by sound,
which follows the chapters and sections of the
DEB-book (0.5 Gb).
You can also download the ppt-files separately, without sound tracks
Last update: 2014/04/15 |
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| Lifecycles | These sites give a mondern overview of the classification of organisms as background for the many species mentioned in the DEB-book. | ||||||||||||
| Exercises & answers | Collection of exercises, which follows the chapters of the DEB-book. |
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| Quizzes & checks | These quizzes might help you to check your progress in the understanding of DEB theory. They can be used as part of the DEB tele-course. |
| Essays & theses | The essays were written as part of a DEB tele-course. Theses on DEB theory and its applications. |
| Questions & answers | These sites give collections of questions and answers that arose during the DEB tele-courses. The numbering follow the chapters and sections of the DEB-books, editions 2 and 3. |
| Basic methods in Theoretical biology | This document summarises basic methods that is required for work in quantitative biology. Examples illustrate the application of these methods. |