This might be incredibly difficult to do but I think it could be a cool idea to try and add a pixel editor/animation suite into this. I could see it working like this.
Right click on the Generated pixel character you want, have a menu that says something like "Output to Animator". Then the program would populate a sprite sheet with the chosen pixel character. Maybe you could edit pixels directly in the animator, but I think it could also be cool to have it generate procedural variations of the pixel character automatically, maybe have a little animation preview window. Then have the ability to export the sprite sheet to be used in whatever.
I think if you could pull this off this would be a must have for any 2D game developer (I mean it already kind of is). The ability to procedurally generate and animate sprites in one place could be pretty crazy.