In this study De-noising of Magnetic anomaly maps from Archeological areas are applied Cellular Neural Networks(CNN) in order to determine the structure boundaries. It is important that border detection and seperated anomaly of archaeological ruins in Archeo-geophysical studies. Study area is Sivas-Altinyayla Region which is located in the east of Basoren village. Magnetic map obtained from Magnetic studies on the ruins of Hittite civilization in this area is applied CNN. Aim of this study is determination boundary the ruins of Hittite civilization by detection border and denoising of anomaly map.