Thank you for useful suggestions. 2010/10/26 Tom Goddard <goddard@sonic.net>:
Hi C.J.,
In addition to what Elaine suggested, you can also mask to an icosahedral surface, or a radial interpolation between a flat face icosahedron and a sphere. You would use the Icosahedron Surface dialog (menu Tools / Higher-Order Structure) or the "shape" command to make this surface and the "mask" command to make a new density map containing only the density within the surface.
All of the Chimera masking techniques just set the density map values to zero outside the surface. This produces a pretty jagged edge between density inside and density outside.
Tom
Dear all,
I want to mask area outside certain surface and to visualize the inner capsid of a virus by Chimera. Anyone would be kind to help me with that?
C.J.