I'm a little confused as to why one would want to do this, or should I say, why you expect to get better results, at least in the case of video. Mistika attempts to solve the parallax issue by using optical flow, and this isn't an option for PTGui. In my experience one can get better per image stitching with PTGui because it can warp image regions specific to the particular frame, but the stitching in such a template will worse for other frames that are composed differently.