GLAD: a mixed-membership model for heterogeneous tumor subtype classification. - Hachem Saddiki; Jon McAuliffe; Patrick Flaherty (Bioinform., 2015)

GEMINI: a computationally-efficient search engine for large gene expression datasets. - Timothy DeFreitas; Hachem Saddiki; Patrick Flaherty (BMC Bioinform., 2016)

SCSIM: Jointly simulating correlated single-cell and bulk next-generation DNA sequencing data. - Collin Giguere; Harsh Vardhan Dubey; Vishal Kumar Sarsani; Hachem Saddiki; Shai He; Patrick Flaherty (BMC Bioinform., 2020)