LAMMPS

The LAMMPS implementation of the oxDNA and oxDNA2 coarse-grained model for DNA and RNA [1-3] is distributed as LAMMPS USER-package and available for download from the LAMMPS webpage. Please visit the websites of the LAMMPS online manual and USER-CGDNA package.

The model is also available from our central repository at CCPForge. This distribution includes the twistable elastic polymer model of DNA (TEP) [4].

627px-nanoring

DNA nanoring modelled with oxDNA

[1] T. E. Ouldridge, A. A. Louis and J. P. K. Doye, J. Chem. Phys134, 085101 (2011).
[2] P. Šulc, F. Romano, T. E. Ouldridge, J. P. K. Doye, A. A. Louis,  J. Chem. Phys. 140, 235102 (2014).
[3] B.E. Snodin, F. Randisi, M. Mosayebi, et al., J. Chem. Phys. 142, 234901 (2015).
[4] C.A. Brackley, A.N. Morozov, D. Marenduzzo, J. Chem. Phys.  140, 135103 (2014).

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