There are lots of lists of incubators around (eg please see OnStartups question 8614 ) however the majority are based in the US, with just a few in Europe.
(Please see OnStartups question 18887 for a list of startup companies that are based in Germany.)
Does anyone know of any incubators that are in Germany?
There are many incubators, it depends also on the industry you're interested in:
Hope this helps.