Re: Simple Neurite Tracer plugin - analyze skeleton

Posted by Ignacio Arganda-Carreras-2 on
URL: http://imagej.273.s1.nabble.com/Simple-Neurite-Tracer-plugin-analyze-skeleton-tp5012441p5012447.html

Hello Rotem,

That's indeed a bug. It should be fixed within the code but for now, what
you can do is to call Analayze Skeleton with the option to display the
skeletons, change the calibration of the skeletons manually (Image >
Properties) and then call the Analyze Skeleton plugin from the main menu.

I hope this helps!

ignacio

On Sun, Apr 12, 2015 at 11:04 AM, Rotem Oved <
[hidden email]> wrote:

>   Hi all,
> I'm trying to use the plugin called"simple neurite tracer" on fiji (under
> "segmentation"), tomeasure filaments length mostly. The plugin does seem to
> use the informationstored at the images in order to set a scale, and at the
> beginning, at thewindow called "all paths", it shows me the measurements in
> microns,just as I want them. However, when I go at the plugin's window to
> analysis-> analyze skeleton, the information that is given then does not
> match theprevious information, and we believe it is given in pixels (I
> attached an imageto demonstrate). Is there any way to convert that, so that
> all the informationwill appear in microns?
> If something is unclear I would be morethan happy to explain what I meant.
> Thank you very much.
>
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> ImageJ mailing list: http://imagej.nih.gov/ij/list.html

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Ignacio Arganda-Carreras, Ph.D.
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