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This article describes the calculation of the magnetic field in the axial direction for the Helmholtz coil. The inhomogeneity of the magnetic field for this coil system is calculated. Authors defined the functional connection of the magnetic flux density in the system center from the antimagnetic shield thickness in two ways: iron and Finemet alloy shield. The dependency graph of the magnetic field inhomogeneity in the center of shielded Helmholtz coils system from the axial coordinate value is estimated.