About "Find Maxima - Segmented Particles"

[SixGallon]

Hi all,

    I am new to this software and I am using ImageJ to extract bulbs from my image.

    I found this http://rsbweb.nih.gov/ij/docs/guide/146-29.html and the picture shown here is really close to what I am working on. How can I achieve the resulting effect shown on the right, with all the bulbs outlined and identified in green lines? I tried "Segmented Particles" from "Find Maxima" but I end up with something like a voroni diagram and all my bulbs are gone.



    I searched about this issue and some suggested me to use "above lower threshold". But setting any threshold to my grey scale picture seems to alter my whole picture as my bulbs and background are somewhat blurry.

    Thanks

[Michael Schmid]

Hi anonymous,

you are right, the output of 'Find Maxima' with 'Segmented Particles' is just a binary image with separate areas for each particle.

The image in the ImageJ documentation shows the outline of the particles in the binary image as you would get it when running 'Analyze Particles' with 'Add to Manager' on the binary image.  You can then select the original image, and unclick+click 'Show All' in the ROI manager, then you see these particle outlines as an overlay of your original image.

Showing it this way in the documentation is meant to better show how the 'Segmented particles' correspond to the original image.

Michael
________________________________________________________________


On Jun 12, 2014, at 18:05, SixGallon wrote:

> Hi all,
>
>    I am new to this software and I am using ImageJ to extract bulbs from my
> image.
>
>    I found this  http://rsbweb.nih.gov/ij/docs/guide/146-29.html
> <http://rsbweb.nih.gov/ij/docs/guide/146-29.html>   and the picture shown
> here is really close to what I am working on. *How can I achieve the
> resulting effect shown on the right, with all the bulbs outlined and
> identified in green lines?* I tried "Segmented Particles" from "Find Maxima"
> but I end up with something like a voroni diagram and all my bulbs are gone.
>
> <http://imagej.1557.x6.nabble.com/file/n5008169/Capture.png>
>
>    I searched about this issue and some suggested me to use "above lower
> threshold". But setting any threshold to my grey scale picture seems to
> alter my whole picture as my bulbs and background are somewhat blurry.
>
>    Thanks
>

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[SixGallon]

I really appreciate your explanation!