AFFINose Interaction Training
This folder is the public entrypoint for AFFINose training and data preparation.
The executable source files are currently preserved in the historical interaction-training directory:
../bertint/
Use these files for the AFFINose workflow:
| Step | File |
|---|---|
| Build combined protein-glycan binding data | ../bertint/build_combined_dataset.py |
| Generate glycan-disjoint splits | ../bertint/generate_glycan_splits.py |
| Define the AFFINose model | ../bertint/bertint_v8.py |
| Define the AFFINose dataset | ../bertint/dataset_v8.py |
| Train AFFINose | ../bertint/training_v8.py |
| Run AFFINose inference from a checkpoint | ../bertint/bertint_v8_inference.py |
| Compare ablations | ../bertint/compare_ablation.py |
The historical filenames are retained to keep the code traceable to the original training logs and manuscript provenance. In public-facing text, refer to this workflow as AFFINose.