Don't worry about the shaky camera. That's the least of your problems. I actually need a shaky camera for my animations to make it look real. Think about it, there's a lot of other things to worry about. Is it actually understandable? Check the quality of the video, make sure there is the least amount of colour (I'm Canadian) change created by the camera as possible. Check the focus of the camera. You did that alright. You should've seen my first stop motion animation...I blame it on the people helping me with it.