Quantification of axonal direction on bielschowsky stained brain samples

[Paolo]

Hi all,

I performed Bielschowsky staining for axons assessment in brain cortices and
I would like to evaluate axonal directions. Has someone else tried to do
that? It is possible? Do you have any suggestion?

Many thanks
Best

Paolo



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[Paolo]

Dear Herbie,

here you can find an example.

I need to evaluate the orientation of dark small fiber.

Many thanks for your help.

Paolo

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[Herbie]

Dear Paolo,

attached please find what I've analyzed using your sample image after some
pre-processing.
(Why did you provide a screen shot and not the original image? Is the image
taken from a publication or website?)

Pre-processing:
// ImageJ macro code
makeRectangle(13, 46, 885, 660);
run("Crop");
run("32-bit");
run("Specify...", "width=660 height=660 x=443 y=330 constrain centered");
run("Crop");
run("Unsharp Mask...", "radius=1 mask=0.90");
run("Invert");
run("Specify...", "width=660 height=660 x=330 y=330 oval constrain
centered");

The resulting image was analyzed according to:
<www.gluender.de/Writings/WritingsTexts/HardText.html#Gl-2013-1>
(Please note that OrientationJ uses a completely different, namely a local
approach.)

<http://imagej.1557.x6.nabble.com/file/t380516/axon_gray_d659-132_x1_y1.png>
Image "axon_gray_d659-132_x1_y1.tif" is a bipolar dc-free and windowed
excerpt from the pre-processes image. It was used for the orientation
analysis.

<http://imagej.1557.x6.nabble.com/file/t380516/OrientationSalience-axon_gray.png>
Plot "Orientation Salience of "axon_gray".tif" is the result from my
orientation salience analysis.
Please note that the angle starts horizontally and increases
counter-clockwise. (OrientationJ uses a different angle convention!)
You can extract the numerical data from the plot by clicking on the
"List"-button.

Regards

Herbie

:::::::::::::::::::::::::::::::::::
Am 01.10.17 um 13:53 schrieb Paolo:

> Dear Herbie,
>
> here you can find an example.
>
> I need to evaluate the orientation of dark small fiber.
>
> Many thanks for your help.
>
> Paolo
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html

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