A reliable alternative to popular microbiome analysis R packages. We provide standard tools as well as novel extensions on standard analyses to improve interpretability and the analyst’s ability to communicate results, all while maintaining object malleability to encourage open source collaboration.
The goal of tidyMicro is to provide a cohesive pipeline for microbiome data analysis and visualization.
You can install the released version of tidyMicro from CRAN with:
install.packages("tidyMicro")
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 PCA plots