I need to generate a residue-residue contact plot for a protein.
I was trying in VMD but there I didn't find a way improve the quality of the plot, I mean a way to include the residue indices, better colors etc.
I cam across these two plots, attached herein.
Could anyone help me out there?
I think you can find out a solution to your query from the following link
http://www.bioinformatics.org/cmview/tutorial.html
Thanks Danish.
One more thing, how can I keep the scales indicating the residue indices?
Hi,
U can do it by selective indexing followed by g_contacts. The quality of plot can be exaggerated using good plotting programs like GNUplot, grace etc. U too can do using DSV where u can select what type of contacts u r intrested in (backbone, side-chains etc). I will suggest u to go for g-contacts rather than using any visualizer like DSV, VMD etc.
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