This repository contains code used to analyze the 16S sequencing from the CEREMI project. The results can be read in the following publication:
Burdet, C., Grall, N., Linard, M., Bridier-Nahmias, A., Benhayoun, M., Bourabha, K., Magnan, M., Clermont, O., d’Humières, C., Tenaillon, O., Denamur, E., Massias, L., Tubiana, S., Alavoine, L., Andremont, A., Mentré, F., Duval, X. for the CEREMI group, 2019. Ceftriaxone and cefotaxime have similar effects on the intestinal microbiota in human volunteers treated by standard doses regimens. Antimicrobial Agents and Chemotherapy AAC. 02244-18. https://doi.org/10.1128/AAC.02244-18