I am trying to segment the inner gray branch structure from an outer darker gray noise, but I am struggling because the outer background color is similar in color to the inner structure. The original image is on the left and my attempt at isolation is on the right. How do I improve my image segmentation to only include the inner branches and remove all the other noise?
This is what I have so far:
smooth = imgaussfilt(I, 5);
im = imbinarize(smooth,'adaptive','Sensitivity',.62,'ForegroundPolarity','dark');
im = imfill(im, 'holes');
I also have multiple frames of this (stored as .tif files), where the branches are growing over time. I want to track change in area over time, and would like guidance on that as well! In the 'sample images.zip', I included a sample start and end .tif images where I'd like to track changes in branch area over time.
