Don’t know if this is the same of what you’re looking for???
http://www.noeol.de/s3d/
Not my thread…
"well, here is a little step by step HOWTO to making good anaglyphs and -using blender or any other software- to get full animated anaglyphs
1.- get some 3d glasses (if you buy the srheck 1.5 dvd watch it to learn lot’s of tips about bad anaglyph (it’s mainly colour and separation errors because the the anim wasn’t designed for home anaglyph entertainment.)
2.- search the web for some anaglyph theory and tutorials… get ready to play with gimp or photoshop and render pairs of images.
3.- render scenes with elements near and far away and not too saturated colors (BW is better for starters). you must place pairs of cameras instead of only one. move (some centimeters only) as if cameras were your eyes and you were looking some point in front of you (over 10 meters work fine) so rotate them crossing them slightly, remember…one per each eye ;-). save the pair of images as left&right
4.- open them on your photoed prog and mix the channels (get some tutorials from google)
5.- once you master the still anaglyph tech create your animation in the same way without animating the “crossing angle” between eye cameras (it would brake the depth illusion)
6.- get a free command line anaglyph mixer (i used JAC :: http://www.google.com/search?q=joerg…en-US:official ). Render the both cameras animation and mix the frames using the mixer (jac doen’s works with animations, so i made a ms-dos batch file (.bat) with multiple calls to each pair of images (not manually, i build an actionscript to write the text because it’s the only programming language i use)…
7.- and “boyla” you get an anaglyph image per each pair of rendered files… make an avi, wear your 3d glasses and have a good trip!!!

if someone have any questions… just ask.
BTW: i know about the anaglyph sequence plugin on blender tutorial guides but i prefer to do some color fixing to the image pairs before the anaglyph conversion[/b]
…"
Thread here: http://blenderartists.org/forum/showthread.php?t=30555&page=2