Notable Software

Top 5 selected software. Full list is here. Download counts are from Bioconductor and citation counts are from Google Scholar, as of October 4, 2026.

MaAsLin

Multivariable testing of microbe-host associations. MaAsLin 2 and MaAsLin 3 are on Bioconductor.
Bioconductor downloads: 119,909 · Citations: 3,276

MelonnPan

Prediction of metabolite compositions from microbiome sequencing data.
Citations: 334

BayesRecipe

Bayesian regularization for regression and classification.
Citations: 186

Tweedieverse

Differential analysis of omics data based on the Tweedie distribution.
Citations: 48

IntegratedLearner

Integrated machine learning for multi-omics prediction and classification.
Citations: 41