Hi Dave, One more detail. The Chimera "shape" command can create a cylinder that can be colored. Here's an example command shape cyl radius 5 height 10 and documentation http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/shape.html It may be a bit of trouble to align it with your density because the shape command currently does not allow specifying the origin and axis of the cylinder. You have to use separate commands (~select all, select 1, turn y 90, move x 23.5) or hand placement. To show fine details in the surface coloring you need the surface vertices to be as closely spaced as the volume data used to do the coloring. Only the vertices of the surface are assigned colors. Tom David Bhella wrote:
I am looking at some rather noisy cryo-tomography data and I would like to create something akin to icosahedral and spherical sections, using different shapes (cylinders, ellipses etc). I have found spherical and icosahedral sectioning to be a valuable way to represent density and would like to use this in other types of structure. Is it possible to colour the surface of an imported VRML object in the same way as spheres and icosahedra are in the tools>volume data>surface colour dialogue? In my current chimera installation, VRML objects are not listed in this window.... The sort of effect I want to achieve is similar to that described here: http://www.cgl.ucsf.edu/chimera/tutorials/volumetour/volumetour.html#icossur... except that I want to use custom geometries....
Many thanks, Dave
Dr David Bhella
MRC Virology Unit
Church Street
Glasgow
G11 5JR
Telephone: 0141-330-3685
Graphics lab: 0141-330-2989
Mobile: 07717-202439
Virus Structure Web Site:
http://www.mrcvu.gla.ac.uk/research/bhellad/virus_structure.htm
Molecular Machines - Images from Virus Research (Art Exhibition):
http://www.molecularmachines.org.uk
Departmental Web Site:
http://www.mrcvu.gla.ac.uk/staff/bhellad.html
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