This repository contains an implementation of the programming language described in the paper A high-level programming language for generative protein design.
We have provided a tutorial notebook describing the basics of writing programs and running optimization loops. The notebook can be run in Colab:
We have also provided some example programs as described in our original paper.
| Design task | Figure in paper | Program file |
|---|---|---|
| Free hallucination | Figure 2A | free_hallucination.py |
| Fixed backbone design | Figure 2D | fixed_backbone.py |
| Secondary structure design | Figure 2G | secondary_structure.py |
| Functional site scaffolding | Figure 2H | functional_site_scaffolding.py |
| Symmetric monomer design | Figure 3A | symmetric_monomer.py |
| Two-level symmetric homo-oligomer design |
Figure 4A | symmetric_two_level_multimer.py |
| Symmetric binding site scaffolding |
Figure 5A | symmetric_binding.py |