R packages

scMerge: Statistical approach for removing unwanted variation from multiple single-cell datasets.

scClassify: sample size estimation and multiscale classification of cells using single and multiple reference.

CiteFuse: a streamlined package consisting of a suite of tools for CITE-seq data.

CellSPA: Cell Segmentation Performance Assessment.

Python packages

scJoint: transfer learning for data integration of single-cell RNA-seq and ATAC-seq.

scTIE: data integration and inference of gene regulation using single-cell temporal multimodal data.

Packages statistics