rat brain segmentation

[jay chen]

Hello, everyone:

         I have a 3D MRI rat brain image and would like to segment out
3 D rat brain region for further analysis.  I wonder are ImageJ or
other softwares capable to do this?  I appreciate your comments and
suggestions.

                                        Best Regards
                                        Jay Chen

[dscho]

Hi,

On Tue, 1 Sep 2009, jay chen wrote:

>          I have a 3D MRI rat brain image and would like to segment out 3
> D rat brain region for further analysis.  I wonder are ImageJ or other
> softwares capable to do this?

Yes, ImageJ and other softwares are capable of this.

However, typically a lot of manual work is required.

A (really _very, very_ basic) web search reveals this gem:

http://imagejdocu.tudor.lu/doku.php?id=plugin:start#segmentation

(although I realize that TrakEM2 is mis-categorized; it is more about
segmentation than just mere 3D modelling, and I cannot find myself
agreeing with Image5D and HyperVolume_Browser being in that category,
either)

Ciao,
Dscho

[Joel Sheffield]

Volume J has a threshold option that might work for you.
Joel

> Hello, everyone:
>
>          I have a 3D MRI rat brain image and would like to segment
> out
> 3 D rat brain region for further analysis.  I wonder are ImageJ or
> other softwares capable to do this?  I appreciate your comments
> and
> suggestions.
>
>                                         Best Regards
>                                         Jay Chen

--
Joel B. Sheffield, Ph.D.
Biology Department, Temple University
1900 North 12th Street
Philadelphia, PA 19122
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[phone], fax [phone]
http://astro.temple.edu/~jbs