[Chimera-users] Measure the cross section of an EM map

BuddySphinx yangqi.gu at yale.edu
Fri Aug 17 19:04:21 PDT 2018

Thank you!

Sent from Mail for Windows 10

From: Elaine Meng
Sent: Friday, August 17, 2018 10:01 PM
To: BuddySphinx
Cc: chimera-users at 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):

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.

I hope this helps,
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 at 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

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