VMD-L Mailing List

From: Christian Jorgensen (christian.jorgensen_at_merton.ox.ac.uk)
Date: Fri Oct 29 2010 - 14:06:59 CDT

Hi all,
I am trying to write a Tcl script for calculating the xy-plane of my molecules in the solvent box as given in the trajectory, dcd, output file. I want to know the coordinates of the molecule(s) in the xy-plane, and then I want to map this number density distribution of all atoms of the trajectory onto the z-axis to create a slice of volume
xyz

Question: Does anyone know a command in Tcl to make a selection (when the .tcl script is source in VMD) to select a flat xy-region and output the coordinates?

Any help would be most appreciated!
christian