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

[sun]

You can convert xpm2txt and plot in Origin as well

Sent from my iPhone

> On 29-Jan-2014, at 11:21 am, tarak karmakar <tarak20489 at gmail.com> wrote:
> 
> Hi Monoj,
> 
> You can use GNU 3D plot for this particular case.
> 
> cheers,
> Tarak
> 
> 
> On Wed, Jan 29, 2014 at 8:02 AM, Monoj Mon Kalita <mon.123chem at gmail.com>wrote:
> 
>> 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
>> 
>> http://nmr.chem.uu.nl/~adrien/course/molmod/analysis2.html
>> 
>> 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
>> +886-981702268
>> --
>> Gromacs Users mailing list
>> 
>> * Please search the archive at
>> http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before
>> posting!
>> 
>> * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
>> 
>> * For (un)subscribe requests visit
>> https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or
>> send a mail to gmx-users-request at gromacs.org.
> -- 
> Gromacs Users mailing list
> 
> * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before posting!
> 
> * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
> 
> * For (un)subscribe requests visit
> https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or send a mail to gmx-users-request at gromacs.org.