I am new to ImageJ and Macros, but I will need to use it everyday in the next months to quantify the live imaging data I am producing. At the moment, I have some videos of cells replicating and expressing two fluorescent proteins: one is fused to H2B so that to visualize the nucleus, the other is fused to a protein of interest in the cytosol.
What I want to do is to measure the diameter of the nucleus as a function of the presence of the other protein. Theoretically, I should come up with a dataset having this info for each frame of the video. Since I am producing a lot of videos, I want to automate the process by writing a script in Jython.
My answer is: which are the tools that would enable me to segment and measure the diameter of the nucleus? Can you suggest me a pipeline? I wanted to use TrackMate, but it actually doesn´t allow to measure the diameter for each nucleus, as it aproximates all of them with the same circle to track them.
Also, if you know of the existence of a Notebook where I can find functions doing more or less something similar to my task, please let me know! I have to learn a lot and I need a place to start