Software Packages
MUC2 Coarse-Grained Simulations
J. Lavoie
2026.
- GitHub Repository: https://github.com/Mansbach-Lab/muc2_simulations
Coarse-grained molecular dynamics simulations of MUC2 mucin networks at varying resolutions and concentrations, with pore characterization and rheological analysis pipelines.
hVAE Mnist demo
D. Perkov
2026.
- GitHub Repository: https://github.com/sevenpigeons/hVAE_rs
A Rust port of the original hVAE codebase, for easier integration into web applications. Demo.
deeptimeMSMs
R. Mansbach
2024.
- GitHub Repository: https://github.com/Mansbach-Lab/deeptimeMSMs
- Releases: https://github.com/Mansbach-Lab/deeptimeMSMs/releases/tag/tutorial
A series of tutorials modeled after the PyEmma Tutorials, but utilizing the more modern deeptime package infrastructure.