DYI 3-D Video

I saw an interesting episode of "Science of the Movies" on the making of 3-D movies. It got me to thinking about making my own movies. I was thinking of taking two flip cameras (I only have one FlipUltra HD) and mounting them so that their lenses are 2.5 inches apart to replicate the average occular distance. I was wondering if there was a way to create my own anaglyph movies. The part that is really holding me up is how to "publish the video." I'd probably need Final Cut Pro so that I could work with two video tracks (one red and one cyan). After that, I'm not sure. Would I be able to watch that on the iPhone, on my HDTV, on my computer? I'm just going to have to see :-)