MIMIX (MIcrobiome MIXed model) is a Bayesian hierarchical model for the analysis of high-throughput sequencing abundance data from designed experiments. It achieves four scientific objectives:
- Global tests of whether experimental treatments affect microbiome composition,
- Local tests for treatment effects on individual taxa and estimation of theses effects if present,
- Quantification of how different sources of variability contribute to microbiome heterogeneity, and
- Characterization of latent structure in the microbiome (pictured below), which may suggest ecological subcommunities.
Read the preprint on arXiv:
Grantham, NS, Reich, BJ, Borer, ET, Gross, K. MIMIX: a Bayesian Mixed-Effects Model for Microbiome Data from Designed Experiments. In review. Code available at github.com/nsgrantham/mimix