NDID: Nutrient-Driven Instability at a Distance (research compendium)

This repository includes the code we used in Landscape Modification and Nutrient- Driven Instability at a Distance:

• Ecology Letters paper (DOI: 10.1111/ele.13644)
• Preprint DOI: 10.1101/2020.04.20.050302 *).

Installation

We used Julia v.1.5.1 with the following packages:

• LinearAlgebra
• Statistics
• NLsolve
• RecursiveArrayTools
• Parameters
• DifferentialEquations
• PyPlot

See src/install_packages.jl as well as the Actions tab for more details.

Content

Briefly, this repository includes:

• src/ndid_core.jl: includes all core functions:
  • functions that encode the systems of differential equations,
  • bifurcation analysis
  • figures
• src/simulation_example.jl: includes one example of a simulation (i.e., solving the differential equations for a given time span) for both systems,
• src/simulations_main.jl: includes the bifurcation analyses as presented in the main text,
• src/equilibrium_results.jl: uses the NLsolve packages to compute the equilibrium for both systems studied.
• src/sup/: includes all Julia files to reproduce supplementary figures.

Running the analysis

For the main analysis, you can either run the code in simulation_main.jl line by line in an interactive session, or you can run it as a script:

julia src/simulations_main.jl

See also Actions tab. Note that all files in scr/sup can be run independently.

Troubleshooting

Please use the issue feature if you encounter any difficulty while trying to reproduce the analysis.