In the article the mathematical methods of identifying anomalies according to the magnetic survey have been considered. For the analysis of the structure of the magnetic field, essentially depends not only on the deep structure, but also from the near-surface effects and the availability of instrumental noise, a method of median filtering high-frequency component of the field with subsequent regularization, obviating contribution of displacements in the of the magnetometers data was used. For construction of borders of anomalous zones was developed a lineament method allocated of the extreme values of the field and its of transformants.