Re: How to count cells in stacks? (tried 3D object counter)

Posted by Glen MacDonald-2 on Feb 05, 2015; 11:03pm
URL: http://imagej.273.s1.nabble.com/How-to-count-cells-in-stacks-tried-3D-object-counter-tp5011466p5011467.html

Dear Kevin,
Try the Cell Counter Plugin.
Select the ‘Show All’ option to leave a marker visible on other slices so that you can avoid double counts.  ROIs from the manager may applied to the initialized stack but cannot be created on the initialized stack.  So leave the original stack open with, or to create ROIs.


Glen MacDonald
        Core for Communication Research
Virginia Merrill Bloedel Hearing Research Center
        Cellular Morphology Core
Center on Human Development and Disability
Box 357923
University of Washington
Seattle, WA 98195-7923  USA
[phone]
[hidden email]







On Feb 5, 2015, at 2:04 PM, KerL <[hidden email]> wrote:

> Hi all,
>
> I have a stack of images that I would like to quantify. Some cells appear in
> more than 1 z-slice, therefore the possibility of counting a cell twice
> remains. Is there a macro that allows me to solve this problem, preferably
> one that allows me to use the regular ROI manager. I have tried using the 3D
> object counter plugin, but the 3D ROI manager does not allow me to look at
> the counted object in the original image.
>
> <http://imagej.1557.x6.nabble.com/file/n5011466/Capture.png>
>
>
>
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> Sent from the ImageJ mailing list archive at Nabble.com.
>
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