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R. Ephraim's sermons were collected and published in various books: Ir Gibborim (Basle, 1580); Olelot Efrayim (Lublin, 1590); Orah le-Hayyim (ibid., 1595); Keli Yakar (ibid., 1602), commentary on the Pentateuch in homiletic style that was subsequently included in various editions of the rabbinical Bible (Mikra'ot Gedolot); Siftei Da'at (Prague, 1610); Ammudei Shesh (ibid., 1617); Petihot u-She'arim (Zolkiew, 1799). He also compiled a book of sermons entitled Rivevot Efrayim, which is occasionally mentioned in his other works. He composed three Selihot in connection with the invasion of Prague in 1611 by the army of the bishop of Passau.
בשער: בשנת חדש ע'לינו ש'נה ט'ובה [שע"ט]. קולופון: היום... יב שבט לפרט ובפרשה מש"ם שם לו חוק ומשפט וימתקו המים [ש"ף]. "הרבה הגהות" שהוסיף המחבר צויינו בפנים בסוגריים.