Code for analyzing 16S rRNA microbiome data both cross-sectionally and longitudinally using gelada microbiomes as an example dataset. Read the paper here: https://onlinelibrary.wiley.com/doi/pdf/10.1002/ajpa.25020. We have included the full R markdown detailing all analyses as well as scripts for specific analyses and figures in the R_scripts folder.
All 16S sequence data used in this study are available at the NCBI Sequence Read Archive (https://www.ncbi.nlm.nih.gov/) under BioProject ID PRJNA639843. The files needed are in the files folder.
The Biostatistical models folder is for current exploratory analyses.