Sorry I made a mistake. The layer doesn't fade instantaneously like I originally suspected. The problem is that I am using a white layer and setting the opacity of a layer that is white doesn't seem to have any effect. (the layer just stays opaque and you can't see through it, regardless of the value of the opacity) With other colors like yellow, setting the opacity to 0 makes it more translucent but the layer is never completely clear. White seems to be unique in that the appearances doesn't change at all.
One of the scene transitions in the samples folder fades to white. For now I am going to try to do a transition to a scene with a white layer, idle for a second, and return to the original scene using same transition and hope that the particles are just starting to fade. This is an awful solution but I'm out of ideas.
I don't understand OpenGl but if nothing else works I will have to give that a try. Thanks Codemattic!