I am trying to measure cell area using ImageJ; however it isn't great at segmenting each cell and is incorporating the background into the measurements. Is there a macro available to do this?
Dear Laura Ellis ,
Image segmentation and quantification are essential steps in quantitative cellular analysis. In this work, we present a fast, customizable, and unsupervised cell segmentation method that is based solely on Fiji (is just ImageJ)®, one of the most commonly used open-source software packages for microscopy analysis. In our method, the “leaky” fluorescence from the DNA stain DRAQ5 is used for automated nucleus detection and 2D cell segmentation.
Article Automated cell segmentation in FIJI® using the DRAQ5 nuclear dye
Regards,
Shafagat
You can find the "imagej_macros_and_scripts" in the link below.
https://github.com/MontpellierRessourcesImagerie/imagej_macros_and_scripts
Your labeling is specific for an organelle, so the segmentation can't pick out the whole cells cleanly. You would need something that labels the cytoplasm uniformly to get better results. Once you have the binary image, try using a watershed function for the software to try and separate cells.
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