Fig. 2
From: DeepNeuron: an open deep learning toolbox for neuron tracing
The workflow of 3D neurite signal detection. (a) An example of the original 3D image stack. It is a cropped 3D bright-field image of a biocytin-labeled mouse neuron; the pixel resolution is 0.14 um × 0.14 um × 0.28 um. (b) 2D MIP on the XY plane. (c) Initial neurite signal detected by a deep CNN model (AlexNet in this case). (d) Refined 2D signal detection result using a mean shift. (c) and (d) are overlaid on top of B. (e) Mapped 3D detection result based on local maximum intensity along Z-direction. (f) Final 3D detection result after deep learning-based refinement. (e) and (f) are overlaid on top of (a). Red dots indicate 2D/3D detected signals