I’m a university student doing digital image analysis for the first time so would be very grateful for help.
I have run a positive cell detection on my sample and now want to analyse the microenvironment around these positive cells. I have been manually expanding circles around positive cells of interest and splitting them into quadrants (points tool, expand annotation by 100µm, draw 2 rectangles to split the circle into quadrants, subtract these from the area, split annotation). The idea behind the quadrants is that some positive cells are on the periphery of the tissue sample and so I would negate quadrants with area beyond the tissue border.
This is quite tedious, even with duplicating and moving annotations. I wondered if anyone knew of any scripts I could modify so that QuPath could randomly select a set number of positive cells and do this process for me?
Happy to accept any advice.