Dear Chimera users, I am trying to measure the diameter of my filament based on the EM volume. I am wondering which function I can use to measure the cross-section of it? Best, Yangqi Sent from Mail for Windows 10
Hi Yangqi, You could place markers on opposite sides of the density contour surface, then measure the distance between the markers. For marker creation/placement, see Volume Tracer (in menu under Tools… Volume Data): <http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/volumepathtracer/f...> For distance measurement, markers are treated the same as atoms. One way to do the measurement is to Ctrl-click on one marker to select it, then Shift-Ctrl-doubleclick on the other one to also select it and show context menu with a choice to measure the distance. <http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/structuremeas/stru...> I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On Aug 17, 2018, at 6:53 PM, BuddySphinx <yangqi.gu@yale.edu> wrote:
Dear Chimera users, I am trying to measure the diameter of my filament based on the EM volume. I am wondering which function I can use to measure the cross-section of it? Best, Yangqi
Thank you! Best, Yangqi Sent from Mail for Windows 10 From: Elaine Meng Sent: Friday, August 17, 2018 10:01 PM To: BuddySphinx Cc: chimera-users@cgl.ucsf.edu Subject: Re: [Chimera-users] Measure the cross section of an EM map Hi Yangqi, You could place markers on opposite sides of the density contour surface, then measure the distance between the markers. For marker creation/placement, see Volume Tracer (in menu under Tools… Volume Data): <http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/volumepathtracer/f...> For distance measurement, markers are treated the same as atoms. One way to do the measurement is to Ctrl-click on one marker to select it, then Shift-Ctrl-doubleclick on the other one to also select it and show context menu with a choice to measure the distance. <http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/structuremeas/stru...> I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On Aug 17, 2018, at 6:53 PM, BuddySphinx <yangqi.gu@yale.edu> wrote:
Dear Chimera users, I am trying to measure the diameter of my filament based on the EM volume. I am wondering which function I can use to measure the cross-section of it? Best, Yangqi
participants (2)
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BuddySphinx -
Elaine Meng