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Commercial automated systems are now available, such as the Gatan 3View system and the FEI VolumeScope system, where automated sectioning and capture systems are located in a variable pressure, field emission gun, environmental scanning electron microscope (FEG-ESEM). Sequential ultramicrotomy and imaging produce a stack of aligned images that can be viewed in sequence, or further processed using 3D reconstruction and analysis software. Automation has allowed acquisition workflows delivering very large 3D datasets at electron microscope resolution, for example to reconstruct the connectivity of neuronal circuits in brain mapping.
(Hashimoto., 2016) 3D imaging by serial block face scanning electron microscopy for materials science using ultramicrotomy. Ultramicroscopy.