├── .gitignore ├── LICENSE ├── README.md ├── maestro_scripts ├── maestro_applycscheme.py ├── maestro_dummy_at_center_of_mass.py ├── maestro_interacting.py ├── maestro_moi.py ├── maestro_notes.py ├── maestro_pbitches.py ├── maestro_renumber.py ├── maestro_resdist.py ├── maestro_resdist_v2.py ├── maestro_select_by_b_factor.py ├── maestro_transform.py ├── map_interactions_to_structure.py ├── parse_prime_interaction_energies.py └── scatter.py ├── schrodinger_tips.md ├── schrodinger_tips.pdf ├── scripts ├── XL_dock.py ├── _schrun ├── biasf.py ├── enhsamp_patched.py ├── extract_centroids.sh ├── kerseq2hills.py ├── mi.py ├── mkhosts.sh ├── schrun ├── trj_act.py ├── trj_boxinfo.py ├── trj_contact_map.py ├── trj_conv.py ├── trj_ene.py ├── trj_fcluster.py ├── trj_flow.py ├── trj_gcluster.py ├── trj_helix_axis.py ├── trj_interactions.py ├── trj_log.py ├── trj_measure.py ├── trj_periodic_shortest_distance.py ├── trj_query.py ├── trj_rmsd.py ├── trj_sasa.py ├── trj_ssp.py └── trjpeek.sh └── 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