The green squares on the predicted contact map all look like the same shade of bright green to me. I had no problem at all with the old periwinkle colors, but even changing my monitor settings is not giving me shades of green in the new map.
My system has:
Windows 7 64bit
Intel i5 processor
AMD Radeon HD 7900 graphics card
ASUS LCD monitor
Some say the color changes are there, but subtle… However, I am not seeing any differences in coloring.
I fiddled with the colors a bit in Gimp and the above link goes to an image that should be usable for anyone else having this problem.
It's also colorblind friendly, I think. Can we have something like this color gradient for the real contact map?
I agree that the difference in greens is too subtle - I can barely make out two different shades of brightness. I like origami's gold-tone map much better - the colors are easily distinguished from the grey and white background, but are also easy to distinguish from each other.
I agree it can be hard to see. This is part of the reason I included the ability to see the actual weight of a contact by hovering over it.
I didn't want to expand out the range of colors to be too dark, since that can make it difficult to see the contacts in your current structure (the black dots).
I chose green because the human eye peaks in sensitivity around the green or yellow-green wavelengths. That said, it might be worthwhile to include a bit more yellow, or potentially interpolate between yellow and green in order to get the most out of that.