Colocalization with 3D Manager

[Eva_Fiorinelli]

Hi all,

I used the plugin 3D Manager to compare two volumes and tried the colocalization option.

I obtained values for "Colocalization" and for "PcColoc", does anyone could help me to interpret these two values ? Is Colocalization a number of voxels ? Has PcColor any link with the Pearson's coefficient ? I didn't find any explanation on the web and the source code didn't help me.

Thank you,

Eva Fiorinelli

[Thomas Boudier-3]

Dear Eva,

The colocalisation value gives you the number of colocalized voxels
(both in A and B) and pcColoc gives you this number as a ratio of the
volume of A or B :

coloc = volume of intersection of A and B

pcColoc = coloc / Volume of A, or volume of B.

By the way there is a small tutorial (that can be improved ;) ) here :

http://imagejdocu.tudor.lu/doku.php?id=tutorial:working:tutorial_for_3d_roi_manager

Hope this helps,

Best,

Thomas


On 24/08/2015 21:12, Eva_Fiorinelli wrote:

> Hi all,
>
> I used the plugin 3D Manager to compare two volumes and tried the
> colocalization option.
>
> I obtained values for "Colocalization" and for "PcColoc", does anyone could
> help me to interpret these two values ? Is Colocalization a number of voxels
> ? Has PcColor any link with the Pearson's coefficient ? I didn't find any
> explanation on the web and the source code didn't help me.
>
> Thank you,
>
> Eva Fiorinelli
>
>
>
> --
> View this message in context: http://imagej.1557.x6.nabble.com/Colocalization-with-3D-Manager-tp5014127.html
> Sent from the ImageJ mailing list archive at Nabble.com.
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html

--
   /***************************************************************/
      Thomas Boudier, Associate Professor, UPMC,
      Université Pierre et Marie Curie, Paris, France.
      BioInformatics Institute (BII)/IPAL, Singapore.
/**************************************************************/

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

[Eva_Fiorinelli]

Thank you Thomas, it's much clearer for me.

I had read the tutorial but it was not as clear as your explanation :)

Thank you for all your work on ImageJ too.

Eva