Many robot shops have wheels, including robotshop.com, pololu.com, sparkfun.com, and servocity.com.
You can also use RC car/truck wheels for some kinds of mountings/motors.
In general, there are three options:
1) Wheels with the exact diameter you have, and some kind of fastening option.
2) Wheels with a known mounting pattern, and a shaft adapter that goes from you shaft to the wheel. RC style "hex hubs" are an example of this.
3) Wheels with no center; you drill your own hole.