Easy creation of polymeric systems for molecular dynamics with Assemble! - Matteo T. Degiacomi; Valentina Erastova; Mark R. Wilson 001 (Comput. Phys. Commun., 2016)

Learning protein conformational space by enforcing physics with convolutions and latent interpolations. - Venkata Krishnan Ramaswam; Chris G. Willcocks; Matteo T. Degiacomi (CoRR, 2019)

Shape tracing: An extension of sphere tracing for 3D non-convex collision in protein docking. - Adam Leach; Lucas S. P. Rudden; Sam Bond-Taylor; John C. Brigham; Matteo T. Degiacomi; Chris G. Willcocks (BIBE, 2020)

DynDen: Assessing convergence of molecular dynamics simulations of interfaces. - Matteo T. Degiacomi; Shansi Tian; H. Chris Greenwell; Valentina Erastova (Comput. Phys. Commun., 2021)

Transmembrane Protein Docking with JabberDock. - Lucas S. P. Rudden; Matteo T. Degiacomi (J. Chem. Inf. Model., 2021)

Biobox: a toolbox for biomolecular modelling. - Lucas S. P. Rudden; Samuel C. Musson; Justin L. P. Benesch; Matteo T. Degiacomi (Bioinform., 2022)

Molearn: a Python package streamlining the design of generative models of biomolecular dynamics. - Samuel C. Musson; Matteo T. Degiacomi (J. Open Source Softw., 2023)