Re: dcd]

From: Branko (bdrakuli_at_chem.bg.ac.yu)
Date: Mon Feb 01 2010 - 10:59:57 CST

Ipsita,

In VMD (http://www.ks.uiuc.edu/Research/vmd/) you can see every frame
from dcd file, methods for analysis is also offered. Also I can
recomended you VegaZZ that offer to see and analyze dcd files
(http://nova.colombo58.unimi.it/cms/index.php?Software_projects:VEGA_ZZ).
In Vega you should load initial PDB first, than to open DCD via
calculate/analysis.

Branko

ipsita basu wrote:
> Dear all,
> I am running simulations using namd where I get output.dcd
> file for analysis at the last. But I want to see the snapshots after
> each step. I use dcd freq as 2500. How can I see the pictures of my
> system after each step? Unless I can see the picture I can't
> understand my simulation is going wrong or right. I really really need
> to be able to see the system. Please help me. I am new to namd.
>
>
>
> Thanking Yoy
>
> Ipsita Basu
>
>
> --
> Ipsita Basu
> Research Fellow
> c/o : Dr. Chaitali Mukhopadhyay
> Rajabazar Science College
> 92 APC Road
> Kolkata - 700009
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