I´m completely new to the program and I have some problems to build the pipeline and especially to define the parameters I would need to evaluate my pictures.
I´m not even sure, if I can really evaluate my cells with the program, maybe someone could help me here with some advice.
What I want to do is to count autophagosomes in my mouse embryonal fibrolasts which express a GFP-LC3 fusion protein. I attached an example how these cells look like. One of the problems might also be the diversity in the size of the autophagosomes.
I tried to change the example “Speckle Counting” and to adjust it to my purpose but wasn´t successful with this.
If anyone would have a hint or advice how to do this, this would be great.