Hi Huy, There is no Chimera command for color zone, but there should be one. It is possible to make a Python script that does this and you could run that script with the Chimera runScript command. I put a Python script czone.py that does this on the Chimera Python scripts page http://plato.cgl.ucsf.edu/trac/chimera/wiki/Scripts I also added a feature request for a color zone command. http://plato.cgl.ucsf.edu/trac/chimera/wiki/requests Is the reason you want this command because you are writing some script, or you just prefer to use commands when looking at the data interactively? Tom Bui Khanh Huy wrote:
I have a density map and 3 marker sets for coloring my density map. Is this possible to select the 3 marker sets and color my density map with a selected radius (Color Zone tool) by command line?