In this page you will find a few links to free software to make your 3D stereo anaglyphs with the least effort possible.
They all seem to work well, according to the users, and are the most widely known, but I never tested any of them, I do my assembling in Photoshop, where I have a lot more control over the results.
But if you feel lazy or Photoshop-challenged, you may want to go ahead and try these links.
Anaglyph Maker - Windows
Callipygian 3D Photo Editing Software - Windows XP
StereoPhoto Maker - Windows & Mac
StereoPress - Mac
Plascolin - Linux
Also doing a Google search with "anaglyph free software" may help you to find more.
I also strongly advice to read my tutorial, get the templates I have prepared for you and start doing 3D processing in Photoshop, it's simpler that you may imagine.
Download here the right template for your camera's MegaPixel:
For any use you may need to do of my 3D stereo pictures, you find a wide selection (about 500) in the download page.