BIRDMAn: Bayesian Inferential Regression for Differential Microbiome Analysis

BIRDMAn is a framework for performing differential abundance on microbiome data through a Bayesian lens. We provide several default models but also allow users to create their own statistical models based on their specific experimental designs/questions.



BIRDMAn requires Python >= 3.8

There are several dependencies you must install to use BIRDMAn. The easiest way to install the required dependencies is through conda or mamba.

mamba install -c conda-forge biom-format patsy xarray arviz cmdstanpy
pip install birdman

If you are planning on contributing to BIRDMAn you must also install the following packages:

Indices and tables