Hi,
There was no attached photo, but what I assume you want to do is
create a 2D histogram using your RMSD and radius of gyration data,
right? You can do this by reading your RMSD/RoG data back into cpptraj
and using the 'hist' analysis command, e.g.:
readdata rmsd.dat name RMSD
readdata rog.dat name ROG
runanalysis hist RMSD:2 ROG:2 bins 100 out rmsd-rog-hist.gnu
This is assuming that rmsd.dat and rog.dat are data files with the
RMSD/RoG values in the 2nd column (hence the RMSD:2, ROG:2). See the
manual for full details and keywords for the 'hist' command (it has a
lot!). Hope this helps,
-Dan
On Mon, Oct 12, 2020 at 2:01 PM mohamed marzouk
<mohamedmarzoukphysics.gmail.com> wrote:
>
> Hello,
> After I finished simulation I want to do density map between RMSD and Rg such as attached photo.
> I used cpptraj to get RMSD vs frames and Rg vs frames. How can I get this map
>
>
>
>
>
> Best regards,
> Mohamed Marzouk Sobeh
> Ph.D student at Life Science and Technology, Tokyo Institute of Technology, Tokyo, Japan.
> T.A Physics department,Ain Shams University, Cairo, Egypt.
> Emails:
> mohamed_marzouk.sci.asu.edu.eg
> marzouk.aa.m.titech.ac.jp
> marzouk_biophysics.yahoo.com
> mohamedmarzoukphysics.gmail.com
>
> Mob. and WhatsApp.:
> +81 070-4070-9549
> +2 01061417414
>
>
>
>
>
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Received on Wed Oct 14 2020 - 12:00:02 PDT
