Models

Simulation models are a central tool of research at our chair. We apply individual- and agent-based models (IBM / ABM), cellular automaton as well as systems of differential equations. Methods of applied and spatial statistics (statistical models) complete our toolbox. In the following, a brief description of some simulation models is given.

NetLogo interface of the Pinus Brutia IBM

PINUS-Syria (IBM)

The model simulates the growth and mortality of Pinus brutia influenced by distance-independent competition under different site conditions. It can be used to optimize rotation age and thinning regime.

Tammam Suliman

Model world showing the simulated fire spread

PeatFire

PeatFire is a simple individual-based model which simulates fire occurrences in a virtual tropical peatland ecosystem. It involves not only fire on the surface (above-ground) but also below-ground fire. The model tries to simulate how fire could spread from the peat surface to underneath and produce dynamic pattern of burnt patches.

Kirana Widyastuti

Forschungsfrage der Simulationsstudie: Wie wirkt sich die Übertragungsmöglichkeit einer Kompensations-Mutation auf die Fitness eines Plasmids aus? — The type of compensatory evolution determines the capabilities for the transmission of a compensatory mutation (A) and the resulting plasmid fitness (B).

PlasSim - Plasmid population dynamics Simulator

The model consists of three ordinary differential equations describing the dynamics of plasmid-free bacteria, F, nonadapted plasmid bearers, P, and adapted plasmid bearers, A, respectively.

An interactive web app can be used to run simulations with self-defined parameters and download the results: https://martin20.shinyapps.io/plassim/

Further information: see publication in 'mSystems'.

Martin Zwanzig

Screenshot of the model world of IPS-SPREAD — Model world of IPS-SPREAD showing a forest infestion

IPS-SPREADS

Integrates GIS data on tree allocation into IPS (Infestation Pattern Simulation, Kautz et al. 2014) to perform predisposition and risk assessment of bark beetle infestations - still in development

Bruno Pietzsch

DEB-IBM Krill Model

Simulates the Performance of Krill vs. Salps to withstand a warming Southern Ocean

Jürgen Groeneveld

Further information: see publication in 'Nature Ecology & Evolution'

Bettina

Mechanistic model for tree growth and plasticity based on hydraulic architecture

Further information: see publication in Ecological Modelling

Ronny Peters

PlasmidActionIBM

Simulates the intra- and intercellular interaction of plasmids considering a spatially controlled DNA transfer (tra) gene expression (switch of transfer competence)

Martin Zwanzig

Further information and full model code: see publication in 'Plasmid'