http://imagej.273.s1.nabble.com/help-with-3D-segmentation-tp5014798p5014804.html
> Have you tried 3D watershed or 3D Spot Segmentation?
>
> --
> Kenneth Sloan
>
[hidden email]
> Vision is the art of seeing what is invisible to others.
>
>
>
>
>> On Nov 1, 2015, at 08:06 , Aryeh Weiss <
[hidden email]> wrote:
>>
>> I have been asked to do a 3D segmentation of a DAPI stained image, such as the image stack available at:
>>
https://drive.google.com/open?id=0B9hvIdSL8kGyY0NiRzRkaXlINmM>>
>> I find that I can do very well in 2D by blurring the image and doing peak detection, or gray-scale watershed.
>> Gabriel Landini's domes followed by a peak detection or thresholding step also works nicely.
>> However, I have not succeeded in extending this to 3D, using the 3D morphological segmentation tools.
>>
>> A 3D-domes would be nice, but I have not found that.
>> I tried peak detection or 2D-domes and then 3D object counting, but there is still too much overlap in the Z-direction, so that nuclei which
>> overlap vertically are counted as one object.
>>
>> So I seek to tap into the knowledge available on this list, because I am sure someone has already done this type of segmentation.
>>
>> Thanks in advance
>> --aryeh
>>
>> --
>> Aryeh Weiss
>> Faculty of Engineering
>> Bar Ilan University
>> Ramat Gan 52900 Israel
>>
>> Ph: 972-3-5317638
>> FAX: 972-3-7384051
>>
>>
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