Code used for Janiak et al. (2021).
R Markdown scripts used to analyze 16S amplicon sequences from rhesus macaque rectal, genital, and buccal swabs. Manuscript published in Microbiome:
Janiak, M.C., Montague, M.J., Villamil, C.I. et al. Age and sex-associated variation in the multi-site microbiome of an entire social group of free-ranging rhesus macaques. Microbiome 9, 68 (2021). https://doi.org/10.1186/s40168-021-01009-w
Sequencing data has been deposited in the NCBI SRA under the BioProject ID PRJNA692377.
In order to run the analyses, clone this repository, download the sequencing reads, and begin with the script Cayo16S_dada2Code.Rmd