Code

Below is some code that is available on GitHub that I have developed, please email me if you have questions or open GitHub issues if there are bugs!

hado: Hollowframe DNA origami design automation

July 24, 2026

This project is found on GitHub here and is in support of the Automated Design of Stiffness-Tunable DNA Origami Hollowframes for Self-Assembling Metamaterials publication. If used, please cite:

Citation: Vetturini, A. J., Cagan, J., and Taylor, R. E., “Automated Design of Stiffness-Tunable DNA Origami Hollowframes for Self-Assembling Metamaterials.” Preprint, bioRxiv, July 24, 2026. https://doi.org/10.64898/2026.07.23.740378.

Phase field models using JAX.

February 20, 2025

This code is an implementation of Cahn-Hilliard and Allen-Cahn using JAX for grid-based phase field model simulations. The free energy functionals implemented in this package are related to self-assembly principles (see GitHub here for more direct references).

Citation: Vetturini, A. J. (2026). Phase Field Models using JAX (v1.0.0). [Software]. Zenodo. https://doi.org/10.5281/zenodo.18713642

mango: A shape annealing framework for DNA origami nanostructures.

October 17, 2024

This project is found on GitHub here and is in support of the Generative design-enabled exploration of wireframe DNA origami nanostructures publication. If used, please cite:

Citation: Vetturini, A. J., Cagan, J., & Taylor, R. E. (2025). Generative Design-Enabled Exploration of Wireframe DNA Origami Nanostructures. Nucleic Acids Research, 53(2), gkae1268. https://doi.org/10.1093/nar/gkae1268