[chimerax-users] color zones in cryoem density map

[Tom Goddard]

Hi Jonas,

  I added an initial color zone command to ChimeraX, will be in tonight’s daily build.  Here’s an example, image attached.

open 5199 from emdb
open 4v7q
color #1 zone #2 dist 10

And a few more commands to lower the contour level, increase to full resolution (step 1), and hide the connected bits of density less than 1 nm in size:

vol #1 level .1 step 1
surf dust #1 size 10
color #1 zone #2 dist 10

This color zone doesn’t automatically recolor yet when the surface changes (e.g. new contour level).  Needs some more work.

	Tom



> On Apr 3, 2017, at 6:53 PM, Tom Goddard wrote:
> 
> Hi Jonas,
> 
>  The color zone capability is not yet in ChimeraX.  I’ll see if I can add that later this week.
> 
> 	Tom
> 
>> On Apr 3, 2017, at 6:47 PM, Jonas Barandun wrote:
>> 
>> Dear chimeraX users/developers
>> 
>> Is there an easy way to color a cryoem density map based on individual subunits (from a pdb file) - similar to the color zone functionality in chimera?
>> 
>> Thanks a lot
>> 
>> Best
>> Jonas
>> 
>> 
>> _______________________________________________
>> Chimerax-users mailing list
>> Chimerax-users at cgl.ucsf.edu
>> Manage subscription:
>> http://www.rbvi.ucsf.edu/mailman/listinfo/chimerax-users
>> 
> 
> 
> _______________________________________________
> Chimerax-users mailing list
> Chimerax-users at cgl.ucsf.edu
> Manage subscription:
> http://www.rbvi.ucsf.edu/mailman/listinfo/chimerax-users
> 

-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://plato.cgl.ucsf.edu/pipermail/chimerax-users/attachments/20170405/3dce05fa/attachment.html>
-------------- next part --------------
A non-text attachment was scrubbed...
Name: emd5199_color_zone.png
Type: image/png
Size: 619930 bytes
Desc: not available
URL: <http://plato.cgl.ucsf.edu/pipermail/chimerax-users/attachments/20170405/3dce05fa/attachment.png>