Removing neighboring colonies

cellprofiler

#1

I’m trying to count colonies on a plate, but would like to remove colonies that neighbor too close to eachother. Right now my pipeline consists of…

LoadImages
Crop
InvertIntensity
IdentifyPrimAutomatic

This works to identify all colonies, but I want to remove colonies that are very close to other colonies. I’ve tried including “MeasureObjectNeighbors”, which allows me to identify close colonies, followed by “FilterByObjectMeasurement” but I keep on getting an error message. Am I missing a step?

Greg


#2

Hi Greg,

What is the error? This sequence of modules should allow you to discriminate based on neighbors.

Mike