[Chimera-users] one question about slicing

[Tom Goddard]

Hi Jian,

You are right that "Save map as..." ignores the per-model clip planes 
and near/far clip planes. The clip planes only effect what is displayed, 
not what is saved.

To save a rectangular region of a map that may not be aligned with axes 
of the original map you need to interpolate the map on a new grid. The 
procedure for doing it is described in the Guide to Volume Data Display:

http://www.cgl.ucsf.edu/chimera/tutorials/volumetour/volumetour.html#resample

Tom