Figure 2
From: Flexible Learning-Free Segmentation and Reconstruction of Neural Volumes
FLoRIN reconstructions of the Standard Rodent Brain (SRB) (top) and APEX2-labeled Rodent Brain sample (ALRB) (bottom) μCT X-ray volumes. (A) Within the SRB volume, cells and vasculature are visually distinct in the raw images, with vasculature appearing darker than cells. (B) Individual structures may be extremely close (such as the cells and vasculature in this example), making reconstruction efforts prone to merge errors. (C) Segmentation by FLoRIN extracts the structures from the images with minor noise and artifacts that are much smaller than the structures of interest. (D) FLoRIN is able to separate nearby structures based on geometric and grayscale features. (E) After filtering, the final reconstruction distinguishes between cells (purple) and vasculature (red). (F) The ALRB volume spans a large portion of the rodent brain. (G, H) In addition to non-APEX cells and vasculature, ALRB contains APEX2-labeled cells that appear lighter than the background. FLoRIN segmented and filtered the APEX2-labeled cells (I), non-APEX cells (J), and vasculature (K), then reconstructed them into a single volume (L). (M) Throughout the ALRB volume, the vasculature was segmented as a single connected component, and FLoRIN discovered 123,424 non-APEX2-labeled cells and 1,524 APEX2-labeled cells.
