The 23-year-old has been linked with the likes of Lyon, Paris Saint-Germain and Ajax in recent weeks.
“My choice is made. It’s Lyon I want to go to and I will go to them. For a young player like me, I cannot refuse. It is a great club. I set goals in my career, I want to progress and play in the Champions League,” Ndinga told L’Equipe.
He added: “I have already discussed it with [Lyon coach] Remi Garde and he explained why he wanted me. I understand Auxerre president’s [Gerard Bourgoin] preference to keep me but he cannot keep a player against the player’s will.”