My ds was also knocked back by the immunisations, he was well over a week till he settled again, so things may calm down in a day or two. Being in her own room is also stressful I guess. Can't give you any advice unfortunatelly, just that it can take quite a while for the injection to work through their systems. My ds was worse with the first lot, and not quite as bad with the other two so you can be prepared for next time.
Jo