at the moment I am processing hundreds of images by hand using imageJ. I thought about doing a setup in cellProfiler that would save me a lot of time.
The problem is, that I don’t know at all, what modules would be necessary to do the same I now do by hand. Here is what I do:
1 - I get the image stacks in a format called .dv, which I can convert into avi. The sequence of pictures is: all the red images > all the green images > all the blue images of one stack.
2 - I split them, so that I have 3 separate stacks; one for each color
3 - I do a maximum projection of every stack
4 - I adjust the brightness and intensity (this coud be done by rescaleIntensity and Threshhold, maybe?)
5 - I merge all three images into one colour image or do a montage having all the single colours and one merged image
I would be very happy to hear your suggestions.
TThank you kindly in advance,