I've had it done through the feet or hands. This is really energy work. As the person channels energy through your body, be certain that you are in-tune with the person doing this work. It also enabled my niece to not need back surgery. It is uncomfortable at best.
Some practitioners are very painful, try to find one that is tolerable.
I found this more effect for releasing emotional trauma than traditional therapy. I must admit that I disliked the few Shiatsu massages I've had. On the other hand, others have really benefited from it. I find I enjoy acupressure much more. I find it doesn't last as long as Feldenkrais or Trager.