Cell Analysis: identify primary objects failed

Hello everybody,

I am new to the forum and also very new to image analysis, but I was wondering if someone could offer me some help. I have images of mouse retinal pigment epithelium (RPE) stained with phalloidin to visualise the actin filament and therefore to visualise the hexagonal shaped RPE cells (see picture attached). I am interested in analysing the following parameter:

  • counting the neighbour cells
  • ObjectSizeShape

I already tried to modify existing pipelines but it fails when it come to identifying these hexagonal shape cells.
Any help or advice I can get on this process would be appreciated, many thousand thanks!

Hi @awolf0,

Hope you had a chance to try some example pipelines from the cellprofiler website. You can explore tissue neighbors example from there.
If still not able to solve, if possible share the pipeline.


Hi Anne,

Thanks for sharing your experience. Could you please try this example pipeline link?

Please let us know if that works for you