nyzhoulang / microbiotaprocess

MicrobiotaProcess: A comprehensive R package for managing and analyzing microbiome and other ecological data within the tidy framework

This package has many unique features:

• MicrobiotaProcess introduces MPSE class, which make this package more interoperable with the existing computing ecosystem.
• MicrobiotaProcess can bridge several common tools of microbiome analysis with several parsing functions.
• MicrobiotaProcess introduces a tidy microbiome data structure paradigm and analysis grammar via formatted output avoiding memory consumption.
• MicrobiotaProcess provides a wide variety of microbiome analysis procedures under the unified and common framework (tidy-like framework). This will make the related analysis easier.

Anatomy of a MPSE

Overview of the design of MicrobiotaProcess package

✍️ Authors

Shuangbin Xu and Guangchuang Yu

School of Basic Medical Sciences, Southern Medical University

⏬ Installation

Get the released version from Bioconductor:

## try http:// if https:// URLs are not supported ## the url of mirror
if (!requireNamespace("BiocManager", quietly=TRUE))
    install.packages("BiocManager")
## BiocManager::install("BiocUpgrade") ## you may need this
BiocManager::install("MicrobiotaProcess")

the development version from github:

if (!requireNamespace("remotes", quietly=TRUE))
    install.packages("remotes")
remotes::install_github("YuLab-SMU/MicrobiotaProcess")

📖 Vignette

For more details, please refer to the online vignette.

💖 Contributing

We welcome any contributions! By participating in this project you agree to abide by the terms outlined in the Contributor Code of Conduct.