Completely new to CellProfiler. I’m helping a colleague examine tight junctions from a fluorescent stain of claudin-5. Recently, I came across cell profile and saw a user posted around March 2011 with an example of the pipeline they generated. I tried to replicate a similar process, however to no avail. I simply can’t find a threshold value that doesn’t remove all intensity from the image (i.e. the image turns up black). Everything runs fine when I convert the image to grey and invert it. The next step is masking the image using the threshold- and that’s where I hit a snag. Any advice would be greatly appreciated.
Testpipeline.cpproj (219.0 KB)