I am a new user of QuPath. I am attempting to quantify macrodroplets of fat as stained by Oil Red O (counterstain hematoxylin) in liver biopsy sections. I do NOT need to know number of cells staining with Oil Red O, I just need to quantify the number of larger size droplets (say above ~10 um diameter). So essentially I need to define a positive (ORO)-staining object size (not a nuclear size!) and quantify objects that are ORO stained and above that size value.
I have been able to define the stain vector for my ORO stain. I cannot figure out, though, how to get an object detection rather than a cell detection - in the cell detection tool I can define the nuclear size but not the cytoplasmic stain droplet size. Because the sections are cryosections (necessary for Oil Red O staining) the morphology is not great and cell boundaries are difficult to detect. Using the cell detection tool excludes those large droplets that are not immediately adjacent to a detectable nucleus.
Here is a lower resolution sample image. I have whole slide images (svs) so ideally I would want to use my svs file for analysis. I think this task is possible in ImageJ but I don’t want to have to take numerous Tiff images of each of my svs files as this would either be hugely time consuming or introduce selection bias.