Re: Problem regarding cell counting

Posted by gankaku on Apr 24, 2014; 6:15pm
URL: http://imagej.273.s1.nabble.com/Problem-regarding-cell-counting-tp5007416p5007419.html

Hi Sarah,

You might try the following short macro:

run("Subtract Background...", "rolling=100");
run("Median...", "radius=12");
run("Minimum...", "radius=8");
run("Find Maxima...", "noise=2 output=[Count] exclude");
run("Find Maxima...", "noise=2 output=[Point Selection] exclude");
run("Revert");

If your images are all similar, this might be able to recognize mist of
your cells and count them.

regards,
Jan


2014-04-24 18:54 GMT+02:00 SARAH ROSE STERLACE <[hidden email]>:

> Hello,
> I am having trouble how to figure out a way to automatically count the GFP
> stain without counting the background. I have been using the ITCN plugin,
> but I cannot figure out how to have it just count the circles.  Any help
> would be greatly appreciated.
> I have been inverting the image, setting it to 8-bit and enhancing the
> contrast by 3% to show the cells stained deeper in the tissue better to see
> if that would help.  (i have not attached that image because it exceeds the
> size for the email) I am attaching an original image. I have about 100
> images to count, so if I could figure out how to automate the counting that
> would be awesome!
>
> --
> Sarah R Sterlace, C. Phil
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

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