Reports earlier in the week had suggested that Norwich manager Chris Hughton was preparing a bid for the midfielder.
But speaking to The Sentinel, Hughes said that selling Whelan wasn't an option.
He said: "I've had no contact with Norwich. It's not our intention to let Glenn go. We don't anticipate anybody leaving."
Hughes has been linked with a move for Blackpool's Tom Ince although that move now appears unlikely.
Stoke travel to Sunderland on Wednesday evening before a home fixture against Manchester United.