Replica sub-permutation method for molecular dynamics and monte carlo simulations. - Masataka Yamauchi; Hisashi Okumura (J. Comput. Chem., 2019)

Dimerization of α-Synuclein Fragments Studied by Isothermal-Isobaric Replica-Permutation Molecular Dynamics Simulation. - Masataka Yamauchi; Hisashi Okumura (J. Chem. Inf. Model., 2021)

Implementations of replica-permutation and replica sub-permutation methods into LAMMPS. - Masataka Yamauchi; Giovanni La Penna; Satoru G. Itoh; Hisashi Okumura (Comput. Phys. Commun., 2022)

Ingenuity in performing replica permutation: How to order the state labels for improving sampling efficiency. - Daiki Fukuhara; Masataka Yamauchi; Satoru G. Itoh; Hisashi Okumura (J. Comput. Chem., 2023)