No, you couldn't use their app anymore than you can get PhysX to run on an ATi card.
nVidia would have to open up either in order to get them to work.
Of course if you want you can still just buy the glasses;http://www.edimensional.com/product_info.php?cPath=21&products_id=28
But it's still early for ATi to focus their driver efforts on supporting 3D IMO, especially when they could be tweaking their launch drivers, but that's likely to change over time and you'd see similar support, just like in the past. And the features is already supported in hardware;http://www.amd.com/us/products/desktop/graphics/ati-radeon-hd-5000/hd-5870/Pages/ati-radeon-hd-5870-specifications.aspx