Measure Shape descriptors of stacks

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Measure Shape descriptors of stacks

GeoBa
This post was updated on .
Hello,

I have the following problem:
I have 500 images and create a stack of these with Images > Stacks > Images to Stack. Now i want to measure the shape descriptors (Sphericity, Aspect ratio, etc.) for the whole stack. But if I try to measure it with Analyze>Analyze Particels (before this I put a check in Analyze>Set Measurements>Shape descriptors), I get the measurements of all particels of all slices. So I think the programm measure only every single slice of the stack and don´t connect the particels over the slices.

Can anyone help me with this problem?

Best regards,
Georg
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Re: Measure Shape descriptors of stacks

Herbie
Good day George,

as far as I know the mentioned measurements are restricted to 2D, i.e.
images not volumes. This functionality is described in the imageJ manual:
<https://imagej.nih.gov/ij/docs/guide/index.html>
(It's always a good idea to read  manuals!)

3D analyses are much more involved but you may find ImageJ plugins that
are made for this purpose. I've never needed 3D shape analyses, therefor
I can't suggest where to look, but I would start searching here
<https://imagej.nih.gov/ij/plugins/index.html>
and there
<http://imagejdocu.tudor.lu/>

Have success

Herbie

:::::::::::::::::::::::::::::::::::
Am 22.07.17 um 14:38 schrieb GeoBa:

> Hello,
>
> I have the following problem:
> I have 500 images and create a stack of these with Images > Stacks > Images
> to Stack. Now i want to measure the sahpe descriptors (Sphericity, Aspect
> ratio, etc.) for the whole stack. But if I try to measure it with
> Analyze>Measure (before this I put a check in Analyze>Set Measurements>Shape
> descriptors), I get the measurements of all particels of all slices. So I
> think the programm measure only every single slice of the stack and don´t
> connect the particels over the slices.
>
> Can anyone help me with this problem?
>
> Best regards,
> Georg
>
>
>
> --
> View this message in context: http://imagej.1557.x6.nabble.com/Measure-Shape-descriptors-of-stacks-tp5019112.html
> Sent from the ImageJ mailing list archive at Nabble.com.
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

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