I’m still trying to get the hang of using Ilastik, and I was hoping I can get some help in trying to now use my pixel classification data to the object classification features. My goal is to count nuclei in 3D across an image file that is about ~100 z stacks. I train it through the pixel classification and I aim to get segmentation data that is exported. When I go to use the object classification, I add my raw data file (which is already in the Ilastik hf format that I changed through Fiji), and when I want to add my segmentation file, I get an error code saying that my data is not the correct format or that the file I chose had multiple partts to it (lots and lots of labels etc).
I was hoping to get some help on what I’m doing wrong/ ways I can make these two workflows work for me.