Re: [AMBER] RMSD plot in ns

From: Daniel Roe <>
Date: Sun, 20 Jun 2021 10:22:25 -0400


Based on the plot it looks like you do indeed have time in ns (it goes up
to 20 as desired), it’s just the label that hasn’t changed. Try adding
‘xlabel Time’. Or just change the x axis label in grace.


On Sun, Jun 20, 2021 at 7:58 AM Sadaf Rani <> wrote:

> Dear Amber users
> Could you please give me a suggestion on the following problem:-
> I have performed rmsd, rmsf, radius of gyration analysis on the trajectory
> from 20 ns simulation. A total of 2000 frames are saved in trajectory.
> However, I get the number of frames on x-axis instead of time as shown
> below. I used the following command for rmsd calculation:-
> rms tofirst :1-492.CA= first out rmsd1.agr time 0.01 mass
> How should I get time in ns instead of frames?
> Regards
> Sadaf
> [image: image.png]
> _______________________________________________
> AMBER mailing list
AMBER mailing list
Received on Sun Jun 20 2021 - 07:30:03 PDT
Custom Search