AMBER Archive (2005)

Subject: RE: AMBER:how to analyse trajectory files

From: Vineet Pande (pande_vineet_at_hotmail.com)
Date: Mon Feb 14 2005 - 05:07:21 CST

>i am new user to amber. i don't know how to analyse the molecular
>dynamics out put.i gave that file to ptraj.i could not able to
>understand what ptraj is doing.how can i see the variation in potential
>energy with time.is there any other trajectory viewing software is
>there?please help me in this regard.

You may visit the AMBER page: http://amber.scripps.edu/tutorial/index.html
and reproduce some tutorials, though this will take some time but i am sure
it would be worth it & many fundamental questions you may have will become
automatically clear....regarding trajectory viewing software: CHIME or VMD.
cheers
v

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