tidyMicro

A pipeline for microbiome analysis and visualization

Main Features

• Merge any number OTU tables with clinical data into one tidy data set

• Data visualization for exploration

• Calculate, analyze, and visualize diversity measures

• Fit negative binomial, beta binomial, rank sum, and presence absence models

• Create stacked bar charts based on negative binomial and beta binomial model estimates

• Longitudinal and Three Mode PCA plots

Intallation

# install.packages("devtools")
devtools::install_github("CharlieCarpenter/tidyMicro")