- Upload an original image file here directly or share via a link to a file-sharing site (such as Dropbox) – (make sure however that you are allowed to share the image data publicly under the conditions of this forum).
- Share a minimal working example of your macro code.
- This is an slice of a mouse submandibular gland and it is stained with Alcian Blue, an immunohistochemical stain for mucin and mucin-like substances.
- What information are you interested in getting from this image?
I am interested in quantifying the area of the blue staining while excluding the nuclei that seemed to have stained purplish.
What stops you from proceeding?
When setting the threshold to detect the blue area I am not able to exclude the nuclei from the detected area.
What have you tried already?
I tried the analyze particles size exclusion function used when counting nuclei but it just ends up excluding the larger blue stained sections I am actually interested in quantifying
Have you found any related forum topics? If so, cross-link them.
What software packages and/or plugins have you tried?
I am using FIJI so it has packages installed already and I haven’t tried any outside packages yet.