Molecular mechanisms reconstruction from single-cell multi-omics data with HuMMuS. - Remi Trimbour; Ina Maria Deutschmann; Laura Cantini (Bioinform., 2024)

CIRCE: a scalable Python package to predict cis-regulatory DNA interactions from single-cell chromatin accessibility data. - Remi Trimbour; Julio Saez-Rodriguez; Laura Cantini (Bioinform., 2026)