[Chimera-users] zone tool in volume rendering

William Jeffrey Triffo triffo at rice.edu
Thu Feb 14 11:33:57 PST 2008

I've been using the new mask tool to extract features along surfaces,

which is useful in its own right for generating separate maps of 
segmented areas. but, if I wish to color a region around a surface (or 
between surfaces) without generating a new map, I am not sure how to do 
this - the 'zone' and 'color zone' tools in Volume viewer expect atoms 
or marker files.

I had thought about loading multiple files of these surface regions 
after segmenting them out, each with their own color, but loading them 
together produces the ordering problem with the volume rendering. also, 
loading multiple volumes consumes a lot of memory and I run short of memory.

is there currently a way to color arbitrary regions in a volume rendering?

for example, rendering all data within 60 A of a surface with a 
different color than the rest of the volume, or coloring a region 
between two surfaces a different color, analogous to the 'sandwich' 
option of the mask tool.



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