Virus-induced perturbations in the mouse microbiome are impacted by microbial experience

This study includes data from two separate experiments - Experiment 1 and Experiment 2.

• Experiment 1 includes samples from three tissue types: small intestine, cecum, and large intestine
• Experiment 2 includes only small intestine samples

Directories

• Experiment 1: code and data for a full analysis of Experiment 1
• Experiment 2: contains only code for producing the phyloseq object for Experiment 2 to be analyzed in the below
• Combined1_2: code for the analysis of the combined small intestine samples from both experiments