[gmx-users] query about generation of 2D histogram

sangeeta kundu sangeeta0983 at yahoo.co.in
Thu Apr 29 13:58:23 CEST 2010


Respected Sir,
   
 I am trying to generate free energy landscape by using g_sham,From the archive I came to know that  one .xvg file needs to be prepared containing three columns of data, first one is time, 2nd and 3rd one are the coordinates of interest, I used the command 

g_sham -f *.xvg -ls  --histo -ngrid 40 -nlevels 30 

Varying the ngrid I am getting gibbs.xpm file containing squares of different sizes. 
But in neither cases I am getting the histogram. I will be highly obliged if you kindly let me know how to get the histogram.I need delG values that is calculated from the equation delG=-RTln(k), where K is the joint probability of two variables.I am also eager to know how to generate the contour map from those data.


reagrds
Sangeeta



-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://maillist.sys.kth.se/pipermail/gromacs.org_gmx-users/attachments/20100429/57dc8c68/attachment.html>


More information about the gromacs.org_gmx-users mailing list