Total ROI counts at different stages of segmentation workflow.
Thresholding and assigning of ROIs at axon myelin boundary is done on
preliminary segmented images, Interim dataset, for control purposes. Improved
segmentation reduces the number of ROIs in white matter images. After
measurements by the ray measurement tools (RMT), a final cleanup of non-fiber
ROIs and notably damaged fibers is obtained by suitably formulated conditions on
exit from the RMT. See Supplementary Information 3, for specification of additional
conditions and examples of spurious ROIs. Counts for all three image sets were
obtained using deep neural network tool trained only on 20 images from
WM_Set_01.