This is a generic sub-model of animal territory formation. It is meant to be a reusable building block, but not in the plug-and-play sense, as amendments are likely to be needed depending on the species and region. The sub-model comprises a grid of cells, reprenting the landscape. Each cell has a “quality” value, which quantifies the amount of resources provided for a territory owner, for example a tiger. “Quality” could be prey density, shelter, or just space. Animals are located randomly in the landscape and add grid cells to their intial cell until the sum of the quality of all their cells meets their needs. If a potential new cell to be added is owned by another animal, competition takes place. The quality values are static, and the model does not include demography, i.e. mortality, mating, reproduction. Also, movement within a territory is not represented.

The purpose of this model is to explore the influence of integrating individuals’ behavioral dynamics in an agent-based model of COVID-19, on the dynamics of disease transmission. The model is an agent-based extention of an established large-scale Individual-based model called STRIDE. Four risk factors determine the individual’s perception of the risk and how they behave accordingly. It is assumed that individuals with higher levels of risk perception adopt higher levels of contact reduction in their daily routines. Individuals can assign different weights to any of the four different risk factors, i.e., the modeler can model different populations and explore how the transmission dynamics vary among them.

This is the full repository to run the survival analysis (in R) and run the population viability model and its analysis (NetLogo + R) of the Northern Bald Ibis (NBI) presented in the study

On the road to self-sustainability: Reintroduced migratory European Northern Bald Ibises (Geronticus eremita) still need management interventions for population viability

by Sinah Drenske, Viktoriia Radchuk, Cédric Scherer, Corinna Esterer, Ingo Kowarik, Johannes Fritz, Stephanie Kramer-Schadt

…

The community consequences of intra-specific trait variation (ITV) are a current topic in ecological research. The effects of ITV on species coexistence have, yet, not sufficiently been understood. With this individual-based model we analyzed the effect of intra-specific variation in movement by mimicking variation found in ground-dwelling rodents and analyzing how such variation affects inter-specific differences in competitive ability (i.e. foraging efficiency) and temporary coexistence. The movement algorithm and behavioral plasticity was adapted from existing algorithms and current ecological literature. As a measure for temporary coexistence, we analyzed the time until one of the species went extinct.

The model reflects the predator-prey mustelid-vole population dynamics, typically observed in boreal systems. The goal of the model is to assess which intrinsic and extrinsic factors (or factor combinations) are needed for the generation of the cyclic pattern typically observed in natural vole populations. This goal is achieved by contrasting the alternative model versions by “switching off” some of the submodels in order to reflect the four combinations of the factors hypothesized to be driving vole cycles.

An individual-based model to evaluate, whether time delays in plant responses to insect herbivory can be beneficial for the plant.

FoxNet is an individual-based modelling framework that can be customised to generate high-resolution red fox Vulpes vulpes population models for both northern and southern hemispheres. FoxNet predicts red fox population dynamics, including responses to control and landscape productivity. Model landscapes (up to ~15,000 km^2 and bait layouts can be generated within FoxNet or imported as GIS layers.

If you use FoxNet, please cite:

Hradsky BA, Kelly L, Robley A, Wintle BA (in review). FoxNet: an individual-based modelling framework to support red fox management. Journal of Applied Ecology.

The FishCensus model simulates underwater visual census methods, where a diver estimates the abundance of fish. A separate model is used to shape species behaviours and save them to a file that can be shared and used by the counting model.

The model simulates the spatial patterns of secondary forest succession above the current alpine tree line in the context of land use and climate change. Three scenarios are offered: (1) climate change, (2) land use change, (3) species composition.

A simple model to assess the effect of connectivity on interacting species (i.e. predator-prey type)