Fig 8. Comparison of reconstruction and mapping using atlas-free and atlas-informed models on data from the MBAP database.

a) Reconstruction of an MBA Nissl-stained brain histological stack using the atlas-free method. Top row shows the histological stack and Allen mouse brain atlas. Bottom row shows the reconstructed histological stack $I^{\widehat{R}}$ alongside the deformed phantom atlas I, and the diffeomorphic change of coordinates ${\widehat{\phi }}^{-1}$. b) Reconstruction using the atlas-informed method. Top row shows the histological stack and Allen mouse brain atlas. Middle row depicts intermediate iterations of the reconstructed stack $I^{\widehat{R}}$ alongside the deformed atlas $I_0\circ {\widehat{\phi }}^{-1}$ and coordinate grid. Bottom row shows the convergence point of algorithm.