A Sydney osteopath has been charged by police after he allegedly sexually assaulted a female patient during massage appointments at his Bondi Junction clinic, police say.

The 38-year-old man, who police say is also a doctor, was arrested at his clinic on Wednesday and charged with one count of sexual assault and two counts of indecent assault.

Police say a 23-year-old woman attended the Bondi Junction clinic, which offers osteopathy and physiotherapy services, on two occasions, during February and March this year.

Police will allege in court that on both of those occasions the osteopath assaulted the woman during her massage appointments.