I just finished reading "The Life and Teaching of Padampa Sangye, Lion of Siddhas," translated by David Molk with Lama Tsering Wangdu Rinpoche.
It appears from that book that Machik's Chod was at least partly due to the transmission she received from Padampa, though it seems she may have developed a system of her own based on the Shije teachings. As far as the mainstream Shije teachings go, according to the forward of the book, Lama Tesering Wangdu Rinpoche claims that the Shije teachings are incorporated most strongly into the teachings of Je Rinpoche (Tsong Khapa) and the Geluk lineage. There are a variety of tantric practices, as well as the "Mahamudra of Symbols," and there's a special empowerment called the "Twelve Tathagata Initiation of Nairatmya," which includes Tara, Marichi, Vajravarahi, Rabjung Gyalmo, Sarva Nivarana vishkambini, Vajrapani, Manjusri, Yamantaka, Avalokiteshvara, 11-faced Avalokiteshvara Kasarpani, Samantabhadhra, and Achala. Also, he claims that the practice of Palden Lhamo, as it exists in the Gelukpa, was brought to them by Dampa.
There are other tantric practices, as well, that are mentioned.
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