Question

I want to visualize an x-y scatter in 3d, using the density/overlaps as z values. I guess this would be like using alpha as a z-axis – more overlap = higher z. Suggestions? Perhaps using cloud() in lattice library?

Answer 1

There are a variety of 2d density functions available:

MASS::kde2d
fields::smooth.2d
hexbin::hexbin

In general visualizing 3d clouds of points is rather difficult. Pseudo 3d with surfaces is ok but the points do not display with sufficient depth cues. If you really want to try it, then use the rgl package so you can rotate.