The Theoretical and Computational Biophysics Group is pleased to announce the availability of the Shape-Based Coarse Graining tutorial. This tutorial presents one method of coarse-graining, called shape-based coarse-graining, which has been quite successful in a number of applications. In this method, a small number of CG beads are used to represent overall shapes of proteins or lipid membranes, with typical ratio of 200-500 atoms per bead. Requires VMD, NAMD, and a plotting program. Tutorial works on Windows, Mac, and Unix/Linux platforms.

The tutorial consists of a text in pdf format and files used in the tutorial, available below:

Shape-Based Coarse Graining (pdf, 2.4M) (required tutorial files, [.zip, 6.5M], individual files)

Please note that the tutorial does assume a working knowledge of both VMD and NAMD. Tutorials for each of these software programs are available on the TCBG Tutorials page.