[ImageJ-devel] ImgLib2 and RGB Stack Images / Extending TrackMate

[tinevez at pasteur.fr]

Ah! But yes absolutely. 

Then what you need is the multi channel analyzer module that Benoit Lombardo did in the MPI-CBG.

It will measure spot features in all the channels you provide it with.

You will find it here:

https://github.com/tinevez/TrackMate-extras






best

jy
--
Jean-Yves Tinevez
PFID - Imagopole
Institut Pasteur
25-28, rue du Docteur Roux
75724 Paris cedex 15 
France
mob: +33 7 88 17 97 69
tel: +33 1 45 68 82 18
fax: +33 1 44 38 92 54





De : wagner at biomedical-imaging.de
Envoyé : ‎lundi‎ ‎9‎ ‎mars‎ ‎2015 ‎21‎:‎25
À : tinevez at pasteur.fr
Cc : imagej-devel at imagej.net





Dear Jean-Yves,

thank you for your answer. I will have look into the ARGBType of the
ImgLib2. You are right, TrackMate refuses to start with RGB images but
it does not to refuse to start with RGB-Stack images. So my thought was,
that I can simply work with RGB-Stack images instead of RGB images?

Cheers,
Thorsten 

Am Montag, den 09.03.2015, 19:55 +0000 schrieb tinevez at pasteur.fr:
> Hi Thorsten, 
> 
> 
> I think the way is to wrap your image into a ARGBType ImgLib2 images. 
> But you would have to change TrackMate because right now the GUI
> refuses to start with a RGB image. 
> 
> 
> Best
> jy
> 
> 
> 
> 
> --
> Jean-Yves Tinevez
> PFID - Imagopole
> Institut Pasteur
> 25-28, rue du Docteur Roux
> 75724 Paris cedex 15 
> France
> mob: +33 7 88 17 97 69
> tel: +33 1 45 68 82 18
> fax: +33 1 44 38 92 54
> 
> 
> De : Thorsten Wagner
> Envoyé : ‎lundi‎ ‎9‎ ‎mars‎ ‎2015 ‎20‎:‎47
> À : imagej-devel at imagej.net
> 
> 
> Dear list,
> 
> I currently want to extend TrackMate with a spot feature for RGB
> Stacks.
> I want to calculate the hue of the center for each spot to filter the
> particle by color before connecting the dots to tracks.
> 
> However, TrackMate uses ImgLib2 and I wondering how to work with RGB
> Stack images. I cant find any examples how to do that.
> 
> Any help is highly appreciated!
> 
> Cheers,
> Thorsten
> 
> 
> 
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