[Chimera-users] Script for positioning particles according the coordinates.

[Tom Goddard]

Hi Alex,

   There are two scripts (placem.py and place.py) on the Chimera Python 
scripts web page

     http://plato.cgl.ucsf.edu/trac/chimera/wiki/Scripts

that will place models at specified positions.  With the placem.py 
script you specify the models/maps to open and the x,y,z translations 
and optionally the rotation as a quaternion, one model on each line.  
You can repeat the same model.  The place.py script places multiple 
copies of a single model specifying translation and rotation using a 3 
by 4 matrix.

     Tom



> Hi Tom,
>
> When I told about particles I meant electron-density maps (mrc, 
> spider, imagic or ccp4 formats). I know all orientation of the 
> particles and even more all of them a turned already -- what I need is 
> only to place all of them in exact positions. Of cause I can do it 
> manually, but it is bit boring.
>
> Thank you for the help in advance,
>
> Alex
>
>

> Dear colleagues,
>
> I would like to fit about 300 particles inside of the map according to 
> it coordinates (X,Y,Z) what I have found before.  Is it possible to 
> make this procedure automatically, such that program would load one 
> particle, shift it according to its coordinates (change pixel size if 
> necessary) and so on?
>
> Thank you in advance,
>
> Alexander
>
>

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