Software module for DNA structure generation and analysis

This site contains the project documentation for the mdna project that is python toolkit for the structure generation and analysis of DNA molecular dynamics simulations.

Table Of Contents

1. Quick Start
2. Tutorials
3. Explanation
4. Jupyter Notebooks
5. Modules
6. API reference

Quickly find what you're looking for depending on your use case by looking at the different pages.

Example Gallery

Three examples that highlight the building of biomolecular assemblies with mdna. Here we showcase the extension of DNA structures, using proteins as scaffold to generate DNA structure, and lastly to connect two DNA strands to form a DNA loop. Molecular representations are visualized with Mol* Viewer.

Citation

Link to the publication

Acknowledgements

This project is supported by the NWO Klein grant.