[Chimera-users] Chimera help for tomography data!

Elaine Meng meng at cgl.ucsf.edu
Fri Sep 15 09:19:44 PDT 2017


Hi Sweta,
If I understand correctly, you have one volume data set and want to play through its planes.  (Volume Series is for when you have multiple 3D data sets.)  It sounds like you are using the slider in the Planes section of Volume Viewer to do it manually.  
<http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/volumeviewer/volumeviewer.html#planes>

To do it automatically, as you would want for a movie script, you can use the “volume” command “planes” option:
<http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/volume.html#planes>

There is a nice little example at the bottom of this page… you can click the image to see the short movie and then follow the link to see the script that was used:
<http://www.rbvi.ucsf.edu/chimera/data/movie-howto-mar2012/movie_examples.html>

I hope this helps,
Elaine
-----
Elaine C. Meng, Ph.D.                       
UCSF Chimera(X) team
Department of Pharmaceutical Chemistry
University of California, San Francisco


> On Sep 15, 2017, at 6:19 AM, Swetha Vijayakrishnan <Swetha.Vijayakrishnan at glasgow.ac.uk> wrote:
> 
> Dear All,
> I am new to using chimera for EM tomography data. Essentially I am trying to create a movie with tomography and subtomogram data within a single movie. However, i am having trouble making and rendering the movie. 
> 
> I can open the tomogram tilt series (created in IMOD) and manually move it along using the planes option along the axis of interest. However i was trying to see if the Volume series option helps play it automatically but it doesn’t seem to do so. Is this the right way to do it?
> 
> Any help on how i can play through the tomogram through the various planes back and forth and how i can create a movie will be greatly appreciated.
> Thanks and best wishes,
> Swetha 




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