External Resources

Resources for oxDNA

Here we provide a list of publicly available external resources that have been developed to help use oxDNA

• The oxDNA and oxDNA2 models have been implemented in LAMMPS in the USER-CGDNA package. This was developed by Oliver Henrich (with the help of Tom E. Ouldridge, F. Romano and L. Rovigatti). The package documentation can be found here. The code comes with any regular download from the central LAMMPS repository, and it is also available here.

or produce output in oxDNA format

• multi-resolution DNA (mrDNA). This programme from the Aksimentiev group can simulate DNA nanostructures at multiple coarser levels of detail than oxDNA. It can output in oxDNA format. A tutorial can be found here and the repository for the code here.

If you have any resources that you want added do let us know.

Other DNA nanotechnology modelling tools

• CanDo
• multi-resolution DNA (mrDNA)
• NGR MD

DNA nanotechnology design tools

• cadnano
• Tiamat
• vhelix