/tidyMicro

tidyMicro GitHup Repository

Primary LanguageR

tidyMicro

The goal of tidyMicro is to provide a cohesive pipeline for microbiome data analysis and visualization.

Installation

You can install the latest version of tidyMicro from this GitHub using

devtools::install_github("CharlieCarpenter/tidyMicro", 
                         build_vignettes = TRUE) ## Recommended

Or you can install the latest release of tidyMicro from CRAN using

install.packages("tidyMicro")

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 PCA plots