3D Reconstruction and Standardization of the Rat Vibrissal Cortex for Precise Registration of Single Neuron Morphology
Figure 2
Reconstruction of barrel outlines from high-resolution optical section.
(A) Optical section of the barrel field. Manual landmarks (yellow) are placed in barrels that are going to be segmented. White contours show the final segmentation result of this section. (B) Result of gray-value based image segmentation. Gray lines overlaid indicate the Voronoi regions (VR) of the manual landmarks used for region growing (G). (C) Final result of VR-based barrel segmentation. (D) Raw image data of barrel with red contour in A. Line shows pixels included in the line profile in E. (E) Line profiles of the intensity values along the lines before (gray; see D) and after filtering (black; see F). Dashed lines indicate threshold values used to separate different barrels from septum. (F) Result of image filtering. Line shows pixels included in the line profile in E. (G) VR-based region growing. White lines indicate border of the VR of the manual landmark. (H) VR-based barrel detection turns the binary- segmented image into an object image by assigning every segmented pixel to a barrel. (I) Closing merges all fragments belonging to one barrel.