choose a good threshold for all of them. What do you mean with the
> Hi Leila,
>
> Are you sure ImageJ isn't autoscaling your display differently across your
> images?
>
> What does the pixel probe say? Mouse over your data and look at the raw
> numbers spit out in the main ImageJ window's status bar.
>
> Also, can you use an auto-threshold algorithm across all your images to
> make your analysis reproducible without needing to hardcode a specific
> threshold value?
>
> Regards,
> Curtis
>
>
> On Tue, Oct 8, 2013 at 1:56 PM, Leila Alieh <
[hidden email]> wrote:
>
> > Hello!
> >
> > I developed a macro to count the number of cells positives for a given
> > antibody. The cells are selected depending on size, circularity and
> > intensity. I found an intensity value good for some images and I run the
> > macro. After that I found that the choosen threshold is too high for one
> > image, so that to have a reliable valuation for that image I should use
> > half of the threshold chosen for the other images, but this latter
> > threshold is really too low for the other images and it gives a wrong
> > result. I can't understand why this image is so different because the
> > intensity of the cells is not so different by eyes (it's a good quality
> > image, the ab signal is strong and there are no shadows). I was wondering
> > if I did some mistake during the "editing": I had to cut the images (I'm
> > interested only in a small area of them) and save them in a tiff format.
> Is
> > it possible that this editing chenged the intensity values?
> > Thank you for your help!!!!
> >
> > Leila
> >
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http://imagej.nih.gov/ij/list.html> >
>
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