The New 52 books feature her several years after the Joker attack, having recovered full mobility after experimental surgery, although she is still haunted by the near-death experience.
It's unclear how much of that series, written by Gail Simone, will be incorporated into Whedon's film, but sources tell EW the movie will follow Simone's harder-edged storyline rather than the more comical, playful "Batgirl of Burnside" series that was rebooted in 2014, featuring the hero as a social-media obsessed student living in a hipster neighborhood of Gotham.