This repo contains code to reproduce the analyses in "Temporal changes in the individual size distribution modulate the long-term trends of biomass, and energy use of North American breeding bird communities", by Renata Diaz and S. K. Morgan Ernest, in press at Global Ecology and Biogeography.

This code depends on the following R packages. If you do not have them installed, you can install them by running install.packages("<PACKAGE_NAME>") in R.

dplyr
tidyr
vegan
here
maps
mclust
MuMIn
R.utils

To re-run all analyses:

• Download this repo (You can download it as a .zip file by clicking on the green "Code" button and selecting "Download as .zip").
• Open the included .Rproj file.
• Run the script analysis/pipelines/pipeline.R. Results files will be stored in the results directory. Note that, by default, this script will only run analyses for the first 200 (of 1331 possible) sites. This takes about half an hour on a MacBook Air with 16GB of memory. Running for all sites typically takes about 3 hours on the same machine, and must be allowed to run in the same R session for the entire analysis.

You can then load the individual .RDS files (which are described in detail in analysis/results/object_descriptions.md to explore them.

Or, you can reproduce the figures and tables included in the manuscript and appendices by opening and rendering the RMarkdown documents in analysis/writing/final-version/source_documents.