This repository includes all the files needed to perform the statistical analyses and create the plots in Perez-Losada et al. (2023). Microbiome (submitted)
The oral_bacteriomes.Rmd file has the code and comments to generate the oral_bacteriomes.html file. It uploads all the other files when executed
ASVs.biom and ASVs.fasta: data files for Picrust2 analyses
oral_bacteriome.RDS: input for diversity analyses
oral_pathway_*.RDS: phyloseq objects for functional and network analyses
path_abun_unstrat_descrip.tsv.gz: Picrust2 output