I was hoping this forum could help me out. I’m new to CellProfiler, so I apologise if my question has an obvious answer.
I have segmented cells using the green channel, seeded by the blue nuclear channel (IdentifyPrimaryObjects, IdentifySecondaryObjects). That works pretty well. I now want to measure the distribution in the red channel on a per-cell basis. I found I could do this using the Relate module, but as far as I can see this requires the red channel to be segmented into objects first, which is not something I want. Rather, I want to measure things inside the cell based on pixel intensities directly, without segmenting it.
Is there some way to do per-cell stats without first segmenting the image to be measured?
Thanks in advance,