mortonjt / BIRDMAn

Bayesian Inferential Regression for Differential Microbiome Analysis

BIRDMAn

Bayesian Inferential Regression for Differential Microbiome Analysis (BIRDMAn) is a framework for performing differential abundance analysis through Bayesian inference.

Installation

Currently BIRDMAn requires Python 3.7 or higher.

conda install -c conda-forge dask biom-format patsy xarray
pip install cmdstanpy
pip install git+git://github.com/arviz-devs/arviz.git
pip install birdman

You have to install cmdstan through the cmdstanpy.install_cmdstan function first. See the CmdStanPy documentation for details.

See the documentation for details on usage.