I am just starting to use ImageJ, so I am not really sure what to look for. If my question has been answered already, I would appreciate to point me towards it!
Here is the problem: I need to count GFP signals (green dots) in a microscopy picture.
However, it is necessary to only count signals from certain areas of the image. I do have a mask that defines the area.
We already used the Region of Interest Manager to apply those areas to the image. However, this only works manually and we need to analyse a huge amount of images.
Question: is there a macro to automate this task, e.g. by taking only the bright pixels from the mask and apply it to the image?