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The proposed algorithm also outperforms the state-of-the-art nonlinear registration algorithm (original [Formula see text], regional [Formula see text]) for whole slide images and a recently proposed patch-based registration algorithm (patch size 256 [Formula see text] , patch size 512 [Formula see text]) for medical images. Using multi-scale attention mechanism leads to a more robust and accurate solution to the problem of regional registration of whole slide images corrupted in some parts by major histological artifacts in the imaged