Gerzensee is on the Bern–Thun suburban rail line (S-Bahn line S6). Trains from Bern take around 20 minutes and run frequently throughout the day. The station is at the edge of the village, a short walk from the lake.
By car, Gerzensee is about 20 kilometres southeast of Bern centre, reached via the A6 motorway towards Thun or via smaller cantonal roads through the Gürbetal. Parking in the village is limited but generally not a problem outside summer weekends.