Sample image and/or macro code
This image is a picture of a snail (shell).
- What is the image about? Provide some background and/or a description of the image. Try to avoid field-specific “jargon”.
My aim is to calculate the total dark/light area in % relative to the shell area as well as the length of the perimeter that surrounds these areas. My reference is this paper where they have done so before using ImageJ: https://royalsocietypublishing.org/doi/full/10.1098/rsbl.2013.0464
My biggest issue is that thresholding is not accurate enough as can be seen on the second sample image. At the same time, Fiji segmentation or Fiji skeletonize options seem so complex that I have no clue how to adjust them properly for my case. I have tried the default settings for these, but all the results have been subpar - either the middle bright spots get covered or the spots closer to the outline of the shell are being ignored.
I would be grateful for any help!