[Chimera-users] [chimera-dev] 2-D projection of volume in Chimera

Tom Goddard goddard at sonic.net
Mon Mar 4 13:38:19 PST 2013


Hi Jesus,

   There is a tricky way to do a projection of a map in Chimera. You can 
use the map binning capability.  For example, if map #0 has 144 planes 
along the z axis I can add all those planes with

     vop bin #0 binsize 1,1,144

This can be done with a dialog instead of a command using Tools / Volume 
Data / Volume Filter, filter type bin and type in the bin size as 1 1 144.

   You also want a view along an axis other than x, y or z it sounds 
like.  To do that you would resample the map on a new rotated grid so 
that the z axis is along the desired projection axis.  The following 
video shows how to use the Chimera volume dialog subregion selection 
capability to do that

     http://www.cgl.ucsf.edu/chimera/videodoc/rotatedbox/

   Tom



-------- Original Message --------
Subject: Re: [chimera-dev] 2-D projection of volume in Chimera
From: Elaine Meng
To: Jesus Montoya
Date: 3/4/13 11:59 AM
> Hi Jesus,
> Sorry, I don't think there is a way, currently.  Here is the most recent information I could find on that topic:
>
> <http://plato.cgl.ucsf.edu/pipermail/chimera-users/2010-April/005124.html>
>
> Regards,
> Elaine
> ----------
> Elaine C. Meng, Ph.D.
> UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
>
> p.s. For future questions, you may want to send to chimera-users at cgl.ucsf.edu (chimera-dev is mainly for programming questions).
>
> On Feb 26, 2013, at 5:28 PM, Jesus Montoya wrote:
>
>> Hi,
>>
>> Is there a way to project a 3-D volume into a single 2-D image plane in Chimera?
>>
>> For example, I want to load a volume twice into Chimera and view the two copies side by side in an identical orientation (manually set by rotating the volumes with the mouse).
>> Then, I want to view one of them as a 2-D projection along the axis that comes out of the screen.
>>
>> While a "solid" representation of the volume is similar, it is not exactly what I need...
>>
>> Thanks!
>>
>>



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