I am new to cellprofiler and to this forum. Perhaps this has been discussed before - it would be really helpful to be pointed in the right direction.
I have a paired sets of of images of budding yeast cells. One is DIC and the other is in the GFP channel. Depending on the strain, the GFP channel will have different intensity. Some are so low that they cannot be identified unless you see the paired DIC image. So I was thinking of a following flowchart to quantify these differences.
1.Pair the images.
2. Outline the cell boundaries using the DIC image (get a mask?).
3. Use the boundaries as defined above to identify the regions of interest in the paired GFP image (propagate the mask identified above?)
4. And finally measure the intensity of these regions in the GFP channel.
Happy to provide example images if needed.