The Argentine had been linked with an exit from the club for months after a tumultuous first season in charge of Marseille.
However, the coach announced that he had resigned to the press after the game, but revealed that he had made the decision days prior.
"I thank the fans who have always been behind me during games and every day," he said.
"I have finished my work here, I will return to my country. I put everything I have into this team."
