For a density map you can control the number of surface triangles and vertices by choosing the subsampling “step” size in the Volume Viewer dialog.  Step 2 will use every other grid point along x,y,z axes and result in a coarser mesh.  For molecular surfaces computed from atoms, change the vertex density as described here

http://plato.cgl.ucsf.edu/pipermail/chimera-users/2011-January/005889.html

  Tom


On Jul 31, 2018, at 5:53 AM, ⁨עמיחי הולצר⁩ wrote:

And another question - there is "Surface and Mesh options" under the "Features" tab, so one can control the smoothing of the surface, thickness, etc. How can I control the number of nodes of the surface? I mean, I want the mesh not to be so dense. Is it possible?

Thanks again!

2018-07-31 13:38 GMT+03:00 עמיחי הולצר :
When I save it as OBJ file, how can I watch it in chimera again as a molecule with "atoms" and "bonds" (like CONECT line in pdb file)?
I see that OBJ file look like a xml file, and contains coordinates and edges, but does it reflect the mesh?

Thanks,
Amichai

2018-07-30 19:37 GMT+03:00 Tom Goddard :
Hi Amichai,

  Chimera computes density map isosurfaces using the marching cubes algorithm.  It can be saved in various file formats for example OBJ, others are described with the export command


  Tom


On Jul 29, 2018, at 3:06 AM, ⁨עמיחי הולצר⁩wrote:

Hi Chimera support,

I have 2 questions:

1. How does Chimera calculate the mesh from the density map?

2. How can I save the mesh as a file?

Thanks a lot,
Amichai Holzer
Huji
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