Rendering 3d (not anaglyph) video with Blender?

I want to render some animations to view with a DLP-Link active shutter glasses and a DLP projector.

The videos I have tested so far seem to have the info about the video being SBS in the header of the video file. is there some way to set it in Blender, or do I just set up two cameras to render side-by-side and tell the projector to somehow treat that video as SBS stereo 3d instead?