modelforge curated dataset: SPICE 1 OpenFF

Curated SPICE 1 OpenFF Dataset:

Full dataset, version "full_dataset_v2":

This provides a curated hdf5 file for the SPICE 1 OpenFF dataset (Open Force Field initiative default level of theory) designed to be compatible with modelforge, an infrastructure to implement and train NNPs.  This datafile  includes 1,107,018 total conformers for 18,782  unique molecules.

Changes: Fixed tagging issue for scf_dipoleWhen applicable, the units of properties are provided in the datafile,  encoded as strings compatible with the openff-units package.  For more information about the structure of the data file, please see the following:

https://github.com/choderalab/modelforge/wiki/Dataset-and-curation#curation-module

This curated dataset was generated using the modelforge software at commit :

Link to the source code at this commit:

Link to the script file used to generate the dataset:

Source Dataset:

Small-molecule/Protein Interaction Chemical Energies (SPICE).

The SPICE dataset contains 1.1 million conformations for a diverse set of small molecules, dimers, dipeptides, and solvated amino acids. It includes 15 elements, charged and  uncharged molecules, and a wide range of covalent and non-covalent interactions.  It provides both forces and energies calculated using B3LYP-D3BJ/DZVP level of theory, using Psi4 1.4.1.This is the default theory used for force field development by the Open Force Field Initiative.  

This includes the following collections from the MolSSI qcarchive (these are also included in the standard SPICE 1 dataset):

"SPICE Solvated Amino Acids Single Points Dataset v1.1",

"SPICE Dipeptides Single Points Dataset v1.2",

"SPICE DES Monomers Single Points Dataset v1.1",

"SPICE DES370K Single Points Dataset v1.0",

"SPICE PubChem Set 1 Single Points Dataset v1.2",

"SPICE PubChem Set 2 Single Points Dataset v1.2",

"SPICE PubChem Set 3 Single Points Dataset v1.2",

"SPICE PubChem Set 4 Single Points Dataset v1.2",

"SPICE PubChem Set 5 Single Points Dataset v1.2",

"SPICE PubChem Set 6 Single Points Dataset v1.2",

This does not include the following collections (which are part of the standard SPICE 1 dataset):

"SPICE Ion Pairs Single Points Dataset v1.1",

"SPICE DES370K Single Points Dataset Supplement v1.0",

Citations:

Original SPICE 1 publication:

Eastman, P., Behara, P.K., Dotson, D.L. et al. SPICE,  A Dataset of Drug-like Molecules and Peptides for Training Machine Learning Potentials. Sci Data 10, 11 (2023). https://doi.org/10.1038/s41597-022-01882-6