GenerationPhantoms

Generation and visualization of Phantoms

The Phantom, sometimes called the "the motif", is the "unit of pattern" that is repeated in the grid (also called the lattice). The study of Phantoms is divided in the following stages:

Generation of the Phantom

The first step consits on defining the geometry and dimensions of the Phantom. Below, we show an example of a hexagonal Phantom formed by six 15-Angstroms-spheres placed at the vertices of this hexagon. The dimensions of the hexagon are also indicated.

General Volume Parameters:

Xdim	 Ydim	   Zdim   Background      scale

128	  128	    128    0.000000e+00   .5

Feature Parameters:

Then, we create a file, P6.descr, that contains the latter information about the Phantom

Finally, we create the Phantom with the following Xmipp command:xmipp_create_Phantom -i P6.descr -o P6.vol

Visualization of the Phantom

In order to visualizate the Phantom in 3 dimensions we use the program chimera. The following Xmipp command allow us to visualize the Phantom chimera spider: P6.vol

Wonderfull

Main.JavierRodriguez

12 Mar 2007 - 15:26

--Main.JavierRodriguez - 12 Mar 2007