I have recently started using CellProfiler so I am having some trouble creating a pipeline that works for my project. I have been trying to create a pipeline that will differentiate between different colored cells using the “UnmixColors” module. It is not a histologically stained image; rather, it contains red, blue, green, yellow, cyan, and magenta stains. I need to be able to track each group of cells individually later on in the pipeline. When I used the custom absorbance values for the stains, it will still identify some of the other colors. For example, the red image will contain some yellow and magenta as well. If there is a way to input a range instead of an absolute value, I think this could help. Also, I was wondering if there is any way of using an .m file to write this code and then incorporating that into the pipeline.
Thank you in advance,
P.S. I have uploaded a sample image.