I’m trying to segment neuronal growth cones as will as the tip of the processes that holds the growth cone. The idea is that the size and shape of the growth cone dictates it’s health but this metric needs to be compensated by the size of the tip holding it. So far I have a decent pipeline that cleans up the images and segments the right parts. I plan to use the output of the skeleton/endpoints morph module as input objects then segment/measure those object areas on the right channel to get the growth cones. The issue I have is how to find the width of the processes tip holding the growth cone… Put another way, if you were holding a cup in an outstretched hand, I need to measure the size of the cup and the diameter of your wrist. The ratio of the two would tell me if your wrist could hold a bigger cup, but isn’t (weak growth cone) or if your wrist is holding a decent weight cup for it’s size (healthy cone).
Attached is a sample image set plus pipeline.
- 380: Dapi staining neuronal nucleus
- 555: Phalloidin staining everything
- 488: BetaIII staining neuronal processes
Use DAPI as input primary objects, use BetaIII with skeletonization and endpoint morph commands to find endpoints, use Phalloidin as channel to measure growth cones.
Archive.zip (558 KB)