Hi Mithra,

it's normal: there is no voxel above 75% for the
uncinate fasciculus. Looking at the tract, if you want
to be rather conservative, you should go for 20 or
25%...

Hope this helps,
Gwenaelle


--- Mithra <[log in to unmask]> a écrit :

> Hello,
>
> I am trying to create a thresholded mask of Uncinate
> Fasciculus (under the
> JHU White matter Tractography atlas).
>
> I created the mask using the FSL atlas. But when I
> try to threshold it to
> 75%, I get nothing. The resulting file ends up being
> a matrix with all
> zeros.
>
> I have done similar steps for sub cortical
> structures (eg, Hippocampus)
> under the Harvard Oxford Subcortical structure atlas
> and I get the
> thresholded masked image.  The step works for the
> sub cortical structures.
>
>
> I save the structure from the atlas using 1mm
> standard brain as the
> underlay.
>
> To threshold I use this command:
>
> fslmaths UncinatefasciculusL -thr 75
> UncinatefasciculusL75
>
>
> Am I doing this right?
>
>
>
> Thank you.
> --
> Regards,
> Mithra
>
> Imaging Research Center
> University of Texas, Austin
> 3925-B W Braker Lane
> Austin. TX - 78759
> Tel: (512) 232-5725
> Fax: (512) 232-4202
>
> www.irc.utexas.edu
>

     _____________________________________________________________________________
Envoyez avec Yahoo! Mail. Une boite mail plus intelligente http://mail.yahoo.fr