Re: ROI Thresholding

Posted by Dianne Patterson on Sep 18, 2008; 8:30pm
URL: http://imagej.273.s1.nabble.com/ROI-Thresholding-tp3695022p3695024.html

You might want to look for BET (Brain Extraction Tool) which is included in
MRIcro...and FSL.  With BET you can generate a pretty quick estimate of what
is brain and what is not...it isn't perfect, but it is nice to have a first
estimate in a few minutes...and go from there.

-Dianne

On Wed, Sep 17, 2008 at 4:01 AM, Mario Guarracino <[hidden email]
> wrote:

> A wand selection tool for 8 and 16 bits CT/NMR images in available here:
> http://yawi3d.sourceforge.net
>
> Mario
>
> -----Original Message-----
> From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of
> Benjamin Schmid
> Sent: Wednesday, September 17, 2008 10:17 AM
> To: [hidden email]
> Subject: Re: ROI Thresholding
>
> Hi Brandee,
>
> You may want to have a look at our Segmentation editor:
>
> http://132.187.25.13/home/?category=Download&page=SegmentationEditor
>
> The movie on this page shows how to use the actual version. There
> are some features, like defining a threshold for a ROI.
>
> Best wishes,
> Benjamin
>
> On 11:10 Wed 10 Sep     , Brandee Winstead wrote:
> > I'm new to ImageJ, having only done simple ROI measurements
> > successfully. Now I am needing to get total intracranial volume from an
> > MRI and I am hoping to find an easier way to do this than manually
> > tracing the brain on each slice. I thought that if I had a tool similar
> > to the wand select tool in Photoshop that I could adjust thresholds and
> > automatically have an ROI of the brain, since everything but the brain
> > is black. Are there any suggestions as how to go about doing this? Thank
> > you.
> >
> > Brandee Winstead
> > Emory University
>
>

--
Dianne Patterson, Ph.D.
[hidden email]
University of Arizona
SHLS 328
621-5105