Dear Smith, After you get a segmentation (set of colored surfaces) that you like, you can write a new map that contains only the parts that you want. (1) select the surfaces that enclose the parts that you want: Ctrl-click on one colored surface, then Shift-Ctrl-click on others to add them to the selection <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/selection.html#pickselect> (2) use Segment Map menu "File… Save selected regions to .mrc file" to save a new density map masked by the selected surfaces. Also in that menu is a choice to save each surface-enclosed region to a separate map file. <http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/segger/segment.html> <http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/segger/segment.html#menu-file> There's also a tutorial on using Segment Map, but I don't see anything in it about map-erasing: <http://www.cgl.ucsf.edu/chimera/data/segger-howto-jun2010/segger.html> I hope this helps, Elaine ---------- Elaine C. Meng, Ph.D. UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab Department of Pharmaceutical Chemistry University of California, San Francisco On Mar 15, 2015, at 6:03 PM, Smith Liu <smith_liu123@163.com> wrote:

Dear All,

After I segment a map into diffrent color, will you please tell me in detail how can I erase some specific parts of the map which I do not nee for some purpose?

Smith