analyse particles

[Nilwik Rachel (BW)]

Hi all,

Could anyone help me with a specific analysis on a multi-channel image of a histochemically stained section?

In one channel, there's a nuclei staining, and I have made a list with all nuclei in the ROI (using Analyse Particles). Now I would like ImageJ to count the number of nuclei that are positive for another staining, visible in another channel. In this small macro, the ROIs in the list are measured in the channel you select, including the intensity of the staining:

ROIcount = roiManager("count");
for (i=0; i<ROIcount; i++) {
      roiManager("select", i);
                  roiManager("Measure");
                }

My question: can I get a summary of the number of ROIs for which the intensity of the staining in above a certain threshold?

Furthermore, would it be possible to select the ROIs above the threshold (the positive nuclei), take the ROIs of these to another channel, and determine, again, which ROIs are positive for this third staining?

Thanks a lot!

Grs Rachel Nilwik