Single cell segmentation using Fiji/ImageJ

In this video, I show how to use Fiji (ImageJ) to segment individual bacterial cells from an overview image and then quantify the fluorescent signal for each cell. You can find Fiji here: https://imagej.net/software/fiji/ For more advanced segmentation, I would recommend checking out cellpose or MiSiC, which both rely on deep learning networks. Cellpose: https://www.cellpose.org/ MiSiC: https://github.com/pswapnesh/MiSiC