You don't 'tune' a bike for a quickshifter, but some flashes include a QS function as part of the programming. Some newer bikes come with the QS function already built into the stock ECU. You can also use an external controller, whether a function-specific device like a HealTech or (ahem) a TTR, or you can use something like a Power Commander V.
I have been looking for any updates and progress on this topic. Are there any ongoing projects out there? How many would be interested in this project? I know someone who has the background and experience with Carbon fiber moldings that can make this a reality. Let me know. Thanks