I just saw a talk about BiofilmQ at the MEE meeting. I am wondering if it is possible to work with images that are not z-stacks. We do genetic screens in my lab and have single endpoint images of macro-colonies. It seems like the program only works with stacks. Is that correct?
apologies for the late reply. BiofilmQ also works on 2D images, so you can give it a try with your data . Let me know if you have any further questions.