COTree is a statistical framework for analyzing cell-resolved multi-omics trajectories, which enables a broad range of downstream analyses, including cell classification, fate prediction, developmental time detection, and driver species identification.

MetaDICT is a method for the integration of microbiome data. This method is designed to remove batch effects and preserve biological variation while integrating heterogeneous datasets. MetaDICT can better avoid overcorrection when unobserved confounding variables are present.

RSim is a reference-based normalization method that corrects sample-specific biases for sequencing data analysis, even in the presence of many zero counts.