I am trying to perform the Sholl analysis of skeletonised microglia on Fiji. However, as shown below in red arrows, the plugin falsely recognised intersections at quite a few spots where no signals from microglia processes could be seen. This error always appeared at edges of the image and along a straight line from the defined centre of the soma. I have got the same issues using one of the Fiji’s sample images of rat neuron without skelenisation. Thus, this should be a common problem of this plugin.
I would appreciate it if anyone could let me how to avoid this problem or eliminate these false intersections from the marked image.
Thank you very much indeed.