krithika krishnaswamy wrote:
Am a new user to gromacs and am making a comparitive study of different
bilayer simulation.For the other two bilayers i took pre-equilibriated
system and ran the simulation.Now for one of the bilayer am trying to
make it of my own.
I tried to remove water,by first adding water to entire system and then
removed water from sides using a tcl script.But since this system is
huge,am getting error with this procedure.
My query is,*how will you add water to the bilayer so that water should
not be in the middle & sides of the bilayer.*Is there something that can
be specified in the genbox command so that i can add water to that layer
alone and build layer by layer.Am damn confused.Please provid a solution
for this
Start here: http://wiki.gromacs.org/index.php/Membrane_Simulations
Mark
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