[gmx-users] How to visualize the Free Energy Landscape file generated by g_sham

Monoj Mon Kalita mon.123chem at gmail.com
Wed Jan 29 03:32:54 CET 2014

Dear Gromacs user,

I have used the g_sham method to generate free-energy-landscape.xpm file.
To do that I have followed this website


Now my problem is how to plot RMSD, radius of gyration and free energy in a
single file . I can have a plot of Rg and RMSD in 2D, but unable to plot
Rg, RMSD and Free energy value in a single file as they have shown in the
website. I have used the mathematica software version 9 and have used the
notepad given by the website. When I execute the program it doesn't show
any output. Is there any other way to have a nice plot of Rg, RMSD and Free
energy together in a single polt? Have a nice day.


 With Regards
Monoj Mon Kalita
Institute of Biophotonics<http://www.ym.edu.tw/biophotonics/eng_version/home.htm>
Fischer's Lab <http://www.ym.edu.tw/~wfischer/group.html>
National Yang-Ming University<http://nymu-e.web.ym.edu.tw/front/bin/home.phtml>
Taipei, Taiwan
mon.123chem at gmail.com

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