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daa - Differential Abundance Analysis

Lifecycle: experimental Bioc-release Codecov test coverage

Using the package

This package provides functions for differential abundance analysis (DAA) of microbiome data. It works with TreeSummarizedExperiment and SummarizedExperiment objects from the miaverse ecosystem.

Available methods:

  • getWilcoxon() / addWilcoxon() - Wilcoxon rank-sum test
  • getTtest() / addTtest() - t-test (Welch’s or Student’s)

For more information, see the function reference and the Orchestrating Microbiome Analysis (OMA) online book.

Installation

Bioc-release

if (!requireNamespace("BiocManager", quietly = TRUE)) {
    install.packages("BiocManager")
}

BiocManager::install("daa")

Bioc-devel

if (!requireNamespace("BiocManager", quietly = TRUE)) {
    install.packages("BiocManager")
}

BiocManager::install(version = "devel")
BiocManager::install("daa")

Contributing

Contributions are welcome in the form of feedback, issues, and pull requests. See contributor guidelines.

Code of Conduct

Please note that the daa project is released with a Contributor Code of Conduct. By contributing to this project, you agree to abide by its terms.