[gmx-users] Peptide distance matrix

[Steven Neumann]

Dear Gmx Users,

I want to calculate a distance matrix of each amino acid (1, 2, ...25)
averaged over simulation time with all amino acids. So matrix of
25x25:

1) is there a tool which can do this or just the use of g_dist fof 600
(25x25 - 25) times?
2) Would you recommend any nice visualisation tool (bioinformatic
software) to obtain colorful matrix?

Thank you in advance,

Steven