├── LICENSE ├── README.md ├── demo ├── DNA_sequence.txt ├── NAFlex_params.txt ├── in.run └── nucl.txt ├── lammps_custom_src ├── Makefile.DNA_mpi ├── bond_harmonic_DNA.cpp ├── bond_harmonic_DNA.h ├── fix_langevin.cpp ├── fix_langevin.h ├── hremd_steve.cpp ├── hremd_steve.h ├── neighbor.cpp ├── neighbor.h ├── pair_aniso.cpp ├── pair_aniso.h ├── pair_ljlambda.cpp └── pair_ljlambda.h └── main_simulations └── input_scripts ├── chemically_specific_12N_165NRL_HREMD ├── DNA_sequence.txt ├── NAFlex_params.txt ├── in.hremd_breathing ├── in.hremd_nonbreathing ├── nucl_b.txt └── nucl_nonb.txt └── minimal_coexistence ├── DNA_sequence.txt ├── NAFlex_params.txt ├── data_b.txt ├── data_nonb.txt └── in.run /LICENSE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/CollepardoLab/CollepardoLab_Chromatin_Model/HEAD/LICENSE -------------------------------------------------------------------------------- /README.md: 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