Hi,
Sounds like an interesting project.
I would tackle this project on a number of levels.
1. Go for the easiest quick and dirty, low-cost prototyping method. I am sure your budget is small.
2. Find a way to mount the Wii Remote on your microscope or whatever viewing device you will use.
It will be best to use the available field of view of the Wii Remote using external focusing.
3. See if the Wii Remote can properly detect the IR light for your experiment.
FreeTrack is good for testing dot detection. http://www.free-track.net/english/
4. In parallel, simulate the experiment on a PC at a simple level to see if the concept is viable.
GLOVEPIE v0.29 (or v0.30) is the simplest program to use, or try one of the VB or C programming libraries to prototype it.
PS. I also saw this: LabVIEW interface to a Wii Remote ("Wiimote") -
http://decibel.ni.com/content/docs/DOC-1353Good luck.