Re: MRI wound healing help (image attached)

[AVang]

Here is one of the images I tried to use with the MRI macro.

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[Pradeep Kota]

Hi Amanda,

I am not sure which Macro you are referring to. Here's a macro I came up with, using your attached jpg.

run("Sharpen");
run("Find Edges");
run("Variance...", "radius=2");
setOption("BlackBackground", false);
run("Make Binary");
run("Fill Holes");
run("Analyze Particles...", "size=10000-Infinity add");
selectWindow("Picture1.jpg");
roiManager("Select", 0);

I am sure it can be made better/more accurate if you run it on the original tif. Also, there's room for improvement - for instance, you could try playing with the radius for Variance. Also, the "Find Edges" is incremental. If you duplicate that line, it will run edge detection twice and might help a little bit.

Note: Remember to replace the "Picture1.jpg" in the macro with whatever Tif file you are using.

Good luck
Pradeep

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[Volker Baecker]

Hi,
chances are that the original post is referring to my macro from

http://dev.mri.cnrs.fr/projects/imagej-macros/wiki/Wound_Healing_Tool

If my assumption is right, I might be able to help. Unfortunately I only
see this answer and can not find the original post.

Best regards,
Volker Baecker


Pradeep Kota:

> Hi Amanda,
>
> I am not sure which Macro you are referring to. Here's a macro I came
> up with, using your attached jpg.
>
> run("Sharpen"); run("Find Edges"); run("Variance...", "radius=2");
> setOption("BlackBackground", false); run("Make Binary"); run("Fill
> Holes"); run("Analyze Particles...", "size=10000-Infinity add");
> selectWindow("Picture1.jpg"); roiManager("Select", 0);
>
> I am sure it can be made better/more accurate if you run it on the
> original tif. Also, there's room for improvement - for instance, you
> could try playing with the radius for Variance. Also, the "Find
> Edges" is incremental. If you duplicate that line, it will run edge
> detection twice and might help a little bit.
>
> Note: Remember to replace the "Picture1.jpg" in the macro with
> whatever Tif file you are using.
>
> Good luck Pradeep
>
> -- ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

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