[gmx-users] Dynamic cross correlation map

sukesh chandra gain sukesh at atc.tcs.com
Mon Mar 22 05:57:29 CET 2010

Dear All,

Could you please tell how to plot the Dynamic Cross Correlation Matrix 
with Gromacs analysis tool or other tools. I want to know over a 20 ns 
simulation whether the motions of two residues or group of residues are 
correlated or anti correlated. For this I want to plot a dynamics cross 
correlation map in which I could get the precise information of group of 
I have done the following step and got the covariance matrix but don't 
know how to proceed further.
 >g_covar -f traj.xtc -s topol.tpr -o eigenval.xvg -v eigenvec.trr -l 
covar.log -xpm covar.xpm -ascii covar.dat
Waiting for your input.

Thank You,

Sukesh Chandra Gain
TCS Innovation Labs
Tata Consultancy Services Ltd.
'Deccan Park', Madhapur
Hyderabad 500081
Phone:  +91 40 6667 3572

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