The Sun says that the company plans to have the game, which will be based around Matt Smith's Doctor, in shops in time for Christmas 2010.
"This has been in the pipeline for years," an insider is quoted as saying. "We're delighted to have finally nailed down a deal.
"We went with Nintendo as they have huge appeal for families and Doctor Who is very much a family brand. The Wii console is key for us as it's something families play together."
The BBC is apparently keen to monitor the game closely and has rejected anything too violent.
The insider continued: "BBC Worldwide, which licenses BBC shows, has been trying to find some way of doing it. But you can't have Doctor Who blowing things to bits with a laser gun. That would massively change the nature of the show."
> 'Doctor Who': Meet Amy's boyfriend