The fusion model cubic-based three-dimensional sequential compound inverse analysis method of the present invention includes: a gravity data preprocessing step of performing three-dimensional gravity unit inversion and deriving an initial density cube; A magnetic data preprocessing step of carrying out inverse 3-D magnet unit and deriving an initial magnetic flux cube; A sequential complex inversion step of performing a three-dimensional gravity complex operation and a three-dimensional magnetic force complex inversion sequentially in stages, after forming a fusion model cube from the input density cube and the large magnetic cube; And a geological structure analysis step of calculating and analyzing the geological structure information of the irradiation area from the fused model cubes of each step derived in the sequential complex inversion performing step.
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