DAPAR & ProStaR: software to perform statistical analyses in quantitative discovery proteomics. - Samuel Wieczorek; Florence Combes; Cosmin Lazar; Quentin Giai Gianetto; Laurent Gatto; Alexia Dorffer; Anne-Marie Hesse; Yohann Couté; Myriam Ferro; Christophe Bruley; Thomas Burger (Bioinform., 2017)

ProteoCombiner: integrating bottom-up with top-down proteomics data for improved proteoform assessment. - Diogo B. Lima; Mathieu Dupré; Magalie Duchateau; Quentin Giai Gianetto; Martial Rey; Mariette Matondo; Julia Chamot-Rooke (Bioinform., 2021)

MSclassifR: An R package for supervised classification of mass spectra with machine learning methods. - Alexandre Godmer; Yahia Benzerara; Emmanuelle Varon; Nicolas Veziris; Karen Druart; Renaud Mozet; Mariette Matondo; Alexandra Aubry; Quentin Giai Gianetto (Expert Syst. Appl., 2025)