Supplementary data (CC BY-NC-SA 4.0): A reactive neural network framework for water-loaded acidic zeolites
Creators
- 1. Department of Physical and Macromolecular Chemistry, Charles University, Hlavova 8, 128 43 Praha 2
Description
Content (Creative Commons Attribution Non Commercial Share Alike 4.0 International):
This dataset provides supplementary data to "A reactive neural network framework for water-loaded acidic zeolites". It contains trained Neural Network Potentials (NNP and ΔNNP model), scripts, and all energy and force data used in this work at the (Δ)NNP, ReaxFF, and DFT (SCAN+D3(BJ) and ωB97X-D3(BJ)) level. Energy and forces are stored as ASE trajectory files (traj), readable by the Atomic Simulation Environment (ASE). In addition, this repository contains the generated training database with DFT (SCAN+D3(BJ)) energies and forces as SchNetPack1.0 database (SiAlOH.db) file readable by ASE and SchNetPack version 1.0.
- "aimd_simulations.zip" - VASP INCAR file, XDATCAR and traj file for 10 ps AIMD run (Supplementary Figure 6) and NNP level (re-)calculated energies/forces ("aimd_nnp_recalc.traj")
- "biased_dynamics.zip" - VASP/Plumed input and output files for DFT (SCAN+D3(BJ)) and NNP level biased dynamics including traj files (Supplementary Figure 12)
- "database_input.zip" - structure (cif) files of the initial structures used for database generation (Supplementary Table 1)
- "delta_nnp.zip" - (pytorch) ΔNNP model (compatible with SchNetPack version 1.0) together with example scripts
- "error_stats.zip" - traj files of all generalization tests (Figure 1 and Supplementary Figure 4) storing energies/forces at the SCAN+D3(BJ), ReaxFF, and NNP level as well as traj files with ΔNNP and ωB97X-D3(BJ) energies/forces for a subset taken from biased dynamics runs (Supplementary Figure 11)
- "md_simulations.zip" - NNP level MD trajectories of all generalization test (Figure 1 and Supplementary Figure 4) runs including an example script for an MD run
- "neb_calculations.zip" - traj files and example scripts for NEB calculations at the (Δ)NNP along with the corresponding DFT energy/force data (SCAN+D3(BJ) and ωB97X-D3(BJ))
- "nnps.zip" - (pytorch) NNP model files (compatible with SchNetPack version 1.0)
- "silica_database.zip" - output files of the single-point (SP) and optimization test runs (Supplementary Figure 1) of pure silica structures together with an example structure optimization script
- "SiAlOH.db" - DFT (SCAN+D3(BJ)) training database as SchNetPack1.0 database file readable by ASE and SchNetPack version 1.0
Files
aimd_simulation.zip
Files
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Additional details
Related works
- Is published in
- Publication: 10.1038/s41467-024-48609-2 (DOI)
- Is supplement to
- Preprint: arXiv:2307.00911 (arXiv)
Dates
- Created
-
2023-12-12