Quick Pipeline for algae cell counting?

Hi all,

Does anyone have a pipeline already made for algae (chlorella sorokiniana) counting? The cells are 4-5 µm and are well separated. The main considerations are image noise and the lines from a hemocytometer plate they were imaged on. So, any advice or a share of an existing pipeline would be greatly appreciated!!


You’ve got relatively uneven illumination here, so I’d start with an illumination correction function- you can then probably find your hemocytometer lines and either mask them out (if you don’t want them) or use them to DefineGrid if you want to know how many objects are in each square. Good luck!