Simple high-throughput annotation pipeline (SHAP). - Matthew Z. DeMaere; Federico M. Lauro; Torsten Thomas; Sheree Yau; Ricardo Cavicchioli (Bioinform., 2011)

qc3C: Reference-free quality control for Hi-C sequencing data. - Matthew Z. DeMaere; Aaron E. Darling (PLoS Comput. Biol., 2021)