This directory contains examples of calculactions with UNRES, run on small systems. The following directories contain calculations of different categories: MD - molecular-dynamics-related calculations microcanonical - microcanonical calculations VTS - calculations with variable time step ff_1l2y - 1E0L1L2Y force field ff_gab - 1GAB force field RESPA - calculations with the AMTS algorithm ff_1l2y - 1E0L1L2Y force field ff_gab - 1GAB force field Berendsen - calculations with Berendsen's thermostat ff_1l2y - 1E0L1L2Y force field ff_gab - 1GAB force field Nose_Hoover - calculations with Nose-Hoover thermostat ff_1l2y - 1E0L1L2Y force field ff_gab - 1GAB force field Langevin - Langevin dynamics calculations ff_1l2y - 1E0L1L2Y force field ff_gab - 1GAB force field REMD - calculations with replica exchange molecular dynamics Berendsen - calculations with Berendsen's thermostat ff_1l2y - 1E0L1L2Y force field ff_gab - 1GAB force field Nose_Hoover - calculations with Nose-Hoover thermostat ff_1l2y - 1E0L1L2Y force field ff_gab - 1GAB force field Langevin - Langevin dynamics calculations ff_1l2y - 1E0L1L2Y force field ff_gab - 1GAB force field with_constraints - calculations with distance restraints Berendsen - Berendsen calculations (the only examples for restrained REMD) ff_1l2y - 1E0L1L2Y force field ff_gab - 1GAB force field MREMD - multiplexed replica-exchange calculations ff_1l2y - 1E0L1L2Y force field ff_gab - 1GAB force field CSA - conformational space annealing calculations 4P - 4P force field 1E0LL2Y - 1E0LL2Y force field GAB - 1GAB force field MINIM - energy minimization calculations MULTICHAIN - sample runs on oligomeric proteins Each bottom directory contains the respective batch and C-shell scripts, input file, and the output directory that contains the results of sample calculations, which can be checked against the results of user's calculations