Not directly. You can create a mask using mri_binarize of the range you want, then pass that as a mask to mri_segstats.

doug

Carl Anderson wrote:

Thanks Nick,

I was able to extract T2 values! However, I noticed that mri_segstats appears to only sample T2 values from 0 to 300. Would it be possible to specify some other range for the stats output, say 20 to 90? I have attached a T2_MAP.mgz and T2 stats output.

Thanks again,

Carl

On Thu, Dec 30, 2010 at 6:06 PM, Nick Schmansky <nicks@nmr.mgh.harvard.edu mailto:nicks@nmr.mgh.harvard.edu> wrote:

mri_segstats, for example:

mri_segstats --seg aseg.mgz \
--ctab $FREESURFER_HOME/FreeSurferColorLUT.txt \
--i T1.mgz \
--sum T1.stats


produces a text file 'T1.stats' which has stats on each aseg struct as
taken from the vol T1.mgz.

n.


On Thu, 2010-12-30 at 17:52 -0500, Carl Anderson wrote:
> Dear Freesurfer,
>
>
> I have co-registered a map of whole brain T2-relaxation time
values to
> the corresponding aseg.mgz for this subject (see attached jpegs).
> Does a tool exist in freesurfer to enable regional sampling of T2
> values from the T2-relaxation time map based on aseg?
>
>
> Thanks for any thoughts.
>
>
> Happy New Year.
>
> <<•>>~<>~<<•>>~<>~<<•>>~<>~<<•>>~<>~<<•>>~<>~<<•>>~<>~<<•>>~<>~<<•>>
> Carl M. Anderson, Ph.D. (mail stop 204)
> Assistant Professor of Psychiatry,
> Harvard Medical School &
> The Neuroimaging Center,
> McLean Hospital 115 Mill St.  Belmont, MA 02478
> Ph: 617-855-2972;  Fax: 617-855-2770
> e-mail: remfract@gmail.com <mailto:remfract@gmail.com>;
carl_anderson@hms.harvard.edu <mailto:carl_anderson@hms.harvard.edu>
> <<•>>~<>~<<•>>~<>~<<•>>~<>~<<•>>~<>~<<•>>~<>~<<•>>~<>~<<•>>~<>~<<•>>
> _______________________________________________
> Freesurfer mailing list
> Freesurfer@nmr.mgh.harvard.edu
<mailto:Freesurfer@nmr.mgh.harvard.edu>
> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer



The information in this e-mail is intended only for the person to
whom it is
addressed. If you believe this e-mail was sent to you in error and
the e-mail
contains patient information, please contact the Partners
Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to
you in error
but does not contain patient information, please contact the
sender and properly
dispose of the e-mail.

-- <<•>>~<>~<<•>>~<>~<<•>>~<>~<<•>>~<>~<<•>>~<>~<<•>>~<>~<<•>>~<>~<<•>> Carl M. Anderson, Ph.D. (mail stop 204) Assistant Professor of Psychiatry, Harvard Medical School & The Neuroimaging Center, McLean Hospital 115 Mill St. Belmont, MA 02478 Ph: 617-855-2972; Fax: 617-855-2770 e-mail: remfract@gmail.com mailto:remfract@gmail.com; carl_anderson@hms.harvard.edu mailto:carl_anderson@hms.harvard.edu <<•>>~<>~<<•>>~<>~<<•>>~<>~<<•>>~<>~<<•>>~<>~<<•>>~<>~<<•>>~<>~<<•>>

---

---

Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer