From: Z.Y.Qiu (
Date: Thu Mar 28 2013 - 07:51:31 CDT

Hi,everyone. Now I want to calculate root-mean-square thermal displacement
to check whether the nanopartical
in my simulation is liquid or not.However, I found RSMD in Analysis of
Extension in VMD is short for root
mean square deviation ( ) which has
a different definition of root-mean-square thermal displacement which is
defined as:
Sqrt( Avg (Sum ( ri(t+dt) -ri(t) ) )
Do you know there is a script to calculate root-mean-square thermal
Best wishes!