If you're looking for a place where you can grab half a dozen bagels on Saturday morning, you're out of luck. Your best bet is to try out some of the smaller cafe's near where you live and hope they toast bagels okay[1].
There's "The Bagel Bakery" up in SOMA that has almost decent bagels. But its way too out of the way to get a few bagels for the weekend.
1. For me, this was Nervous Dog Coffee down in Bernal Heights (30th-ish and Mission). Take a look on yelp for cafe's. Ignore the ratings, since they'll be based on the coffee they serve, not bagels.
