Guardiola said Aguero, who has scored six goals in six league games this season, was not fully fit yet but the coach added that he was happy with the striker's progress.
"He did his first training session after what happened," Guardiola told a news conference on Friday. "He did it quite well. Hopefully, as soon as possible he will be back.
"Maybe (he can play against Stoke). Today, in the last training session, we are going to see. He is not 100 percent but he recovered quite well.
"We will see. We are happy he is back in training."
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"Back to training. I am ready!" Aguero said on his verified Twitter account, alongside pictures of him and his team mates in action during Thursday's session.
City will be without skipper Vincent Kompany, who is still recovering from a calf injury picked up playing for Belgium in August.
"He is much, much better but still injured," Guardiola added. "Hopefully, it is the last part. It depends on him when he will come back. He will notify us."
Premier League leaders City, with six wins and a draw, are looking to extend their unbeaten run, while visitors Stoke are 13th with eight points from seven games.
(Reporting by Shrivathsa Sridhar in Bengaluru; Editing by Ken Ferris)
