You could use a white matter atlas (like the JHU white matter label atlas
that comes with FSL) to mask your TBSS results. This would segment your
TBSS results into tract-specific ROIS. This would give you the ROI to
obtain FA values from. This gives you a ROI but not a "tract" in the
anatomical sense. An alternative approach could be to use this ROI to seed
tractography to identify an actual tract, and obtain FA values within the
resulting tract. Hope this helps
On 3/12/09 9:04 PM, "SUBSCRIBE FSL J.Schuurman" <[log in to unmask]> wrote:
> Hi,
>
> My question is about drawing ROIs. After running TBSS I would like to extract
> FA values from the internal capsule tract. If I use fslroi I can only select a
> rectangular ROI which often includes parts of other tracts as well. What is
> the
> best way to define a ROI containing one specific tract, without the
> involvement of adjacent tracts?
>
> Thanks,
>
> Janneke Schuurman
>
> Department of Psychiatry and Neurology
> VU University Medical Center, Amsterdam
India Bohanna
PhD candidate
Neuroimaging Group
Howard Florey Institute
C/- University of Melbourne
Victoria, Australia, 3010
Telephone: +613 8344 1915
Fax: +613 9347 0446
Email: [log in to unmask]
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