Fig. 5
From: A dataset of rodent cerebrovasculature from in vivo multiphoton fluorescence microscopy imaging
Validation of segmentations. Cropped images from the XY and XZ planes taken from the raw volume (‘raw’), and the first (‘first seg’) and final (‘final seg’) rounds of segmentations, are shown for comparison (image volume mv18). In addition to the slice-of-interest (‘slice (XY)’ and ‘slice (XZ)’), the image slices above (‘slice - 1 (XY)’) and below (‘slice + 1 (XY)’) are also shown. In the first segmentation, vessel edges are less uniform (arrows), spurious noise is evident in the segmentations (angles), and vessel segments that are outside of the slice-of-interest, but present in the slices above or below, are included in the segmentation of the current slice (compare dotted outlines). In contrast, in the final segmentation, vessel edges are more uniform, and segmentations are closer to what is visible in the current slice only, according to acquisition parameters. Each round of segmentation consisted of manual corrections and U-Net outputs. For manual corrections of U-Net outputs, emphasis was placed on minimizing manual drawing to reduce human error, and smoothing edges. For example, jagged borders (arrows) observed in the first round of segmentation are smooth by the final segmentation.
