Data and code for: Fragmented Amazonian forest structure modelling using FORMIND

This repository contains data and scripts used for the analysis and figure creation in the paper. All R scripts in this directory are designed to run seamlessly if the working directory is set to the same location where the scripts are stored. You can easily set the working directory in R by right-clicking on the script file and selecting “Set As Working Directory.” The data is split into 4 main folders:

1. Biomass – Contains the script and data used to produce the biomass figure (Figure 2) including the AnalyzeBiomass.R script and an example FORMIND parametrisation and output results before any fragmentation parameters were applied.

2. LiDAR Forest Stand - Holds the script and data for visualizing voxel forests at different growth stages, with an example of the parameterisation files and results for pre- and post-fragmentation simulations.

3. NLME - Includes scripts for creating and plotting non-linear mixed models (NLME) of the forest structural metrics from both FORMIND and TLS datasets, as used in Figures 10-12.

4. Vertical Profiles - Contains scripts and data for generating vertical profiles from various FORMIND parameterizations, corresponding to Figures 5, 7, and 9.