BioND — Dynamics of Biological Networks

Generalized Model Parametrizer for Food Webs

The GM Parametrizer allows to reproduce the generalized models of food webs used in our publications on food web generalized models.
Specifically, it was written as a hands-on supplement to the paper:
by: H. Aufderheide, L. Rudolf, T. Gross, K. D. Lafferty 2013

In the paper, we use generalized models of food webs to find important parts of a complex network with regard to the effects of a perturbation.
The GMParameterizer is a simple implementation of the algorithm creating these food webs in Python.

The GM Parameterizer (a) takes either a real-world food web topology or can generate a (niche) model food web topology, then (b) parameterizes this topology either with a simple example parameterization, randomly as for our simulations or with a user-defined parameterization, and finally (c) computes the resulting generalized model Jacobian matrix, indicating the stability of the obtained system. This Jacobian matrix can then (for example) be used in our program CIP to evaluate perturbation effects in the food web.

An example and more detailed readme file are included in the download.

(C) BY H. AUFDERHEIDE
THE CODE IS DISTRIBUTED AS-IS AND YOU USE IT AT YOUR OWN RISK
This work is licensed under the Creative Commons Attribution-NonCommercial 3.0 License.

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