[Chimera-users] Volume segmentation question

Tom Goddard goddard at cgl.ucsf.edu
Tue Jun 5 12:10:50 PDT 2007

Hi Toby,

  You can use radii larger than 30 with the color zone tool but you have 
to type in the larger number.  The slider only goes to 30 (was  
originally created for x-ray structures).  Making the slider range adapt 
to the size of the displayed data is on my Chimera requests page (item # 
60, http://www.cgl.ucsf.edu/chimera/plans.html).

  I'm still not convinced that selecting connected pieces of a density 
map is going to be useful.  If you choose a low threshold to get the 
structure you want plus some extra padding, then it ends up being 
connected to all kinds of other structures you do not want.  It will 
only work if your structure is not connected to other structures and 
that is rare.  I'm interested in hearing segmentation tool ideas but 
reluctant to spend time on it if it will not be useful.

  I'll be on vacation tomorrow until June 27.  Other Chimera developers 
can answer your questions on the chimera-users list although I am the 
one who develops the volume features.



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