Sample image and/or macro codeCD45 Prim Sec AF488-Image Export-03_c1 2.tif (770.2 KB)
I’m super new to cellprofiler, still trying to figure out how to run the software and create appropriate pipeline.
To give a brief idea, I trying to create overlay outlines to my RAW cells to clearly distinguish nucleus and cytoplasm. The problem I’m facing is that, the software doesn’t recognize nucleus as it considers everything in the diameter range (10-40pixles) as cells, I have tried to reduce the range of diameter but the outline seems to broken into smaller areas.
I’m attaching files that can help.
First image- CD45 prim sec AF488 image- the original image, its a merge image for DAPI- nucleus and CD45 stained with AF488- RAW cells
Second images- This is an example pipeline and images from Cellprofiler. I’m expecting my output images to be similar to this example.
Thrid images- This is how my output images for OverLay Outline looks like now!
I’m not sure how to fix this issue, any kind of help would be very much appreciated!
Thank you in advance!!!