mbImpute: an accurate and robust imputation method for microbiome data

scDesign2: a transparent simulator that generates high-fidelity single-cell gene expression count data with gene correlations captured

PseudotimeDE: inference of differential gene expression along cell pseudotime with well-calibrated p-values from single-cell RNA sequencing data

Network Modeling in Biology: Statistical Methods for Gene and Brain Networks

FEAST: fast expectation-maximization for microbial source tracking

Accurate estimation of cell composition in bulk expression through robust integration of single-cell information