The 1.4 petabyte electron microscopy volume with fully segmented cells in the human cerebral cortex is publicly available, serving as a valuable resource of building numerical phantoms of MRI. However, even few neurite interruptions in cell segmentations can lead to substantial biases in numerical simulations of diffusion inside cells. Here we propose a user interface to automatically correct most of the neurite interruptions and manually edit the corrections. Combing the proposed user interface with Trees toolbox and SpinDoctor for quantitative cell analysis and diffusion simulations, we provide a convenient platform to validate biophysical modeling of MRI evaluating tissue microstructure.
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