From: Premila Samuel Mohan Dass <ps958.iqb.rutgers.edu>
Date: Wed, 13 Mar 2019 16:18:21 +0000
Hi Miriam
You can try doing 3-dimensional surface plots across the 3 variables of secondary structure,time,residues. Look up Matlab’s surf command or Gnuplot’s 3D plots. I prefer 2D maps so I scaled my Matlab 3d-plot to a 2D using view(2) command which I assume is what gnuplot output is showing you too.
Premila
On Mar 13, 2019, at 11:30 AM, Myriam Hanna <myriamkhanna.gmail.com<mailto:myriamkhanna.gmail.com>> wrote:
Hello,
Is there a way to obtain a graph, a plot (not a ‘map’ the one that is generated by gnuplot) of secondary structure of residues vs time using cpptraj?
I can obtain .gnu .agr .xvg files but none of them show a plot that looks like rmsd or rmsf plots for dssp residues vs time
