I’m creating an analysis pipeline to take 400x micrographs of epidermal impressions. The outlines of epidermal cells adjacent to stomata are not easily detected due to the drying of the nailpolish I used to make the impressions. When I threshold & make the image binary, the cells adjacent to the stomata come out as lots of little particles.
I would like to coalesce these particles so that the particle analysis counts them as one.
Any suggestions for a method to clump these particles together?
Here is a link to the original image, the image that particle analyzer counts from, and the results of a particle analysis.
Thanks in advance,
If it helps, here is a text version of my protocol:
Threshold > percentile threshold method
Binary > Open
Binary > Fill Holes
Size (pixel^2) = 800 – Infinity
Circularity = 0-1