Help with integrated density implementation FIJI

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Help with integrated density implementation FIJI

Veronica Andrade
Hello, everyone

Could someone please tell me in which specific file  (jar/macros/ pluggins)
integrated density is implemented in the FIJI program? I am trying to check
which formula is used to calculate Integrated density. And also, if is not
the formula I need I am thinking in a way to change it.

Thank you so much



-----
Veronica Andrade M.

Thesis student at Pontifica Universidad Catolica del Ecuador
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Sent from: http://imagej.1557.x6.nabble.com/

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Veronica Andrade M.

Thesis student at Pontifica Universidad Catolica del Ecuador
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Re: Help with integrated density implementation FIJI

Herbie
Good day!

If you consult section 30.7 of the ImageJ User Guide you find, besides
other topics:

"
*Integrated density*
The sum of the values of the pixels in the image or selection. This is
equivalent to the product of Area and Mean Gray Value. With IJ‚ÄČ1.44c and
later, Raw integrated density (sum of pixel values) is displayed under
the heading RawIntDen when Integrated density is enabled. The Dot Blot
Analysis tutorial demonstrates how to use this option to analyze a dot
blot assay.
"

 From my point of view the term "density" is incorrect because commonly
it denotes a logarithmic entity. Not so here!

HTH

Herbie

::::::::::::::::::::::::::::::::::::::::::::::
Am 26.10.17 um 23:53 schrieb Veronica Andrade:

> Hello, everyone
>
> Could someone please tell me in which specific file  (jar/macros/ pluggins)
> integrated density is implemented in the FIJI program? I am trying to check
> which formula is used to calculate Integrated density. And also, if is not
> the formula I need I am thinking in a way to change it.
>
> Thank you so much
>
>
>
> -----
> Veronica Andrade M.
>
> Thesis student at Pontifica Universidad Catolica del Ecuador
> --
> Sent from: http://imagej.1557.x6.nabble.com/
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

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ImageJ mailing list: http://imagej.nih.gov/ij/list.html
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Re: Help with integrated density implementation FIJI

ctrueden
In reply to this post by Veronica Andrade
Hi Veronica,

> Could someone please tell me in which specific file  (jar/macros/
> pluggins) integrated density is implemented in the FIJI program?

This code is part of the core ImageJ 1.x library (ij.jar), and can be seen
here:

https://github.com/imagej/ImageJA/blob/v1.51r/src/main/java/ij/plugin/filter/Analyzer.java#L646-L649

Regards,
Curtis

--
Curtis Rueden
LOCI software architect - https://loci.wisc.edu/software
ImageJ2 lead, Fiji maintainer - https://imagej.net/User:Rueden
Did you know ImageJ has a forum? http://forum.imagej.net/


On Thu, Oct 26, 2017 at 4:53 PM, Veronica Andrade <
[hidden email]> wrote:

> Hello, everyone
>
> Could someone please tell me in which specific file  (jar/macros/ pluggins)
> integrated density is implemented in the FIJI program? I am trying to check
> which formula is used to calculate Integrated density. And also, if is not
> the formula I need I am thinking in a way to change it.
>
> Thank you so much
>
>
>
> -----
> Veronica Andrade M.
>
> Thesis student at Pontifica Universidad Catolica del Ecuador
> --
> Sent from: http://imagej.1557.x6.nabble.com/
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

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ImageJ mailing list: http://imagej.nih.gov/ij/list.html