you need a plotting program, something like origin will let you plot a matrix.
you can use the DSSP function in ptraj to calculate sec structure. the
command is secstruct, check the manual for details.
On Thu, Feb 19, 2009 at 1:17 AM, Siddharth Rastogi
<siddharthrastogi08.gmail.com> wrote:
> Dear All,
> I am interested to get the plot of distance matrix of all c alpha atoms
> from the output file distmat.dat. Can anyone help me how to generate the
> plot from this output file?
> And also how to study secondary structure analysis using amber traj files.
>
> with thanks from,
>
> Siddharth Rastogi
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Received on Fri Feb 20 2009 - 01:17:02 PST
