I’m relatively new with cellprofiler and I’ve run into some problems with the identifyprimauto module with my images. I’m working with nuclei that tend to touch or overlap and have an uncommon nuclear morphology, since recognizing DAPI bright regions seems to be giving me some difficulty I’m trying to have the module recognize cell borders first, yet I don’t seem to be able to get it to function properly. I’m including a link to a couple images. … m4708304PM

Thanks in advance for the advice.



I would try changing the thresholding method, adjusting the “suppress local maxima,” and “size of smoothing filter” to optimize the identification. Also, be sure to select “yes” for filling holes in identified objects.

hope that helps,