I have done Romanowsky stain on macrophages infected with different Leishmania clinical isolates. Now I want to count the infected cells to calculate the endocytic rate (% infected macrophages x amastigoes/infected macrophages), at 3 different time rates. I have A LOT of plates and I want to find a way to automatically count them. I took pictures and I'm using the KNIME Software to count but I still do not know how to filter and differentiate infected macrophage and non-infected macrophage. Any suggestions?