[Chimera-users] extract parts of a map based on 'volume data gradient norm'

[Elaine Meng]

Dear Dieter,
An isosurface is just the surface of a density map showing a certain level, i.e. the “surface” display in Volume Viewer.

Do you have one map or two maps?  I tried to ask that by saying “if I understand correctly” in my previous message.  I thought you were just coloring the isosurface of one density map by the values in a second map, where the second map is gradient norm map.  

It might help if you attached a picture of the display and Volume Viewer dialog.  “blue part” and “red part” are ambiguous.
Elaine
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Elaine C. Meng, Ph.D.                       
UCSF Chimera(X) team
Department of Pharmaceutical Chemistry
University of California, San Francisco


> On Jun 15, 2018, at 2:51 PM, Dieter Blaas <dieter.blaas at meduniwien.ac.at> wrote:
> 
> Dear Elaine,
>    thank you! I am sorry, but I do not understand: how do I get the isosurface? What is the command? Carefully adjusting the boundaries of the gradient norm, I got a blue and a red part. How can I make an isosurface of one of them? Is this a function in the GUI or do I have to use the command line? Can you please give an example of how to proceed!
> 
> Thank you very much, bw Dieter