Too cute to be wild

Research compendium to reproduce analyses and figures of the following article:

Too cute to be wild: what teddy bears reveal about our disconnection from nature, by Mouquet N., Blanc, N., Brassac T., Casajus N. & Tribot A.-S. Bioscience.

Content

This repository is structured as follow:

• data/: contains data required to reproduce figures and tables

• analysis/: contains subfolders organized by theme. Each folder contains R scripts to run specific analysis

• results/: follows the structure of analyses. Contains intermediate results and the numeric results used to produce the figures

• outputs/: contains the figures produced for the article

• DESCRIPTION: contains project metadata (author, date, dependencies, etc.)

Workflow

• The script analysis/Cludy_toys.R computes functional insurance with simulated metacommunities.

• The script analysis/Bear_vs_nounoursus.R gets the morphometric and colorimetric features from the analysis of images for Teddy bears and Real bears; and perform the main analysis

• The script analysis/features/cluster.R extracts information on color clusters heterogeneity in images.

• The script analysis/features/lumsat.R extracts information on lightness and saturation in images.

• The script analysis/morpho/morpho.R computes the morphometric measures from the analysis of teady and real bears images.

Big files

Some files were not uploaded to GitHub due to their large size. They are available upon request:

• data/illustrations_figures
• data/images_real
• data/images_real_croped
• data/images_real_tocrop
• data/nounoursus

Figures

Figures are stored in outputs/.

The following Figures and Tables can be reproduced with the script indicated in brackets (stored in analysis/):

• cuddly.tiff, was produced by Cludy_toys.R
• fig_pca wad produced by Bear_vs_nounoursus.R`
• fig1-sup, was produced by Bear_vs_nounoursus.R`
• fig2-sup, was produced by Bear_vs_nounoursus.R`

Installation

To install this compendium:

• Fork this repository using the GitHub interface.
• Clone your fork using git clone fork-url (replace fork-url by the URL of your fork). Alternatively, open RStudio IDE and create a New Project from Version Control.

Then, run the following command to install required packages:

# Install < remotes > package (if not already installed) ----
if (!requireNamespace("remotes", quietly = TRUE)) {
  install.packages("remotes")
}

# Install required packages ----
remotes::install_deps()

Contributing

All types of contributions are encouraged and valued. For more information, check out our Contributor Guidelines.

Please note that this project is released with a Contributor Code of Conduct. By contributing to this project, you agree to abide by its terms.