Define ROI and measure intensities

Hi everbody

I have from the same area a eGFP picture and a Alexa568 picture. Now, I would like to define the eGFP positive cells as ROI and measure the average intensity of Alexa568 in this region in the Alexa568 picture. Can you tell me how to do that in CellProfiler?

Thank you very much for your help


Hi Jack,

I would suggest having a look on our Examples page; look for the “Cell/particle counting, and scoring the percentage of stained objects” entry on that page.

Keep in mind that the pipeline is meant to be illustrative; it is optimized for the images used as part of the example, and will most likely need to be tweaked for your particular images.

Hope this helps!

Thanks. I found that this is quite complex for an amateur like myself. For now, I’ll try another program which has more simple settings.

Thank you for your help, anyways