We declare the Bagel Factory to be the best bagels in Pittsburgh. Our favorites are: Marble Rye, Pumpernickel, and Egg. The Egg or Rye are often out of stock when we go in the afternoon which is can be frustrating.
Bagel Factory is also a nice venue to meet people -- especially for blind meet-ups like interviews. There are lots of tables, both inside and outside and a parking lot in the rear.
The biggest downside can be the service. The people are friendly, but they can be under-staffed. If you're ordering food during a rush period, it may take a LONG time.