Stability Oracle: A graph transformer framework for identifying stabilizing mutations

Model Inference

• To generate predictions, use the scripts/run_stability_oracle.py cli. Example commands are provided in scripts/generate_predictions.sh
• Datasets and predictions are provided in the data directory
• Due to their size, graphs need to be downloaded from Zenodo

Thermodynamic Permutations

To augment a dataset with thermodynamic permutations, use the scripts/run_permutation.py cli. Example commands are provided in scripts/generate_permutations.sh

Figures in Paper

• Code to generate figures in the manuscript is provided in StabilityOracle/figures