Hi,

I'm re-posting a question.

Pardon my ignorance.

How do I use this mri_vol2vol command? I tried to follow the notes, however,
I'm not quite sure, hence I was not able to write a ROI mask.

Cheers,
HL

-----Original Message-----
From: freesurfer-bounces@nmr.mgh.harvard.edu
[mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Doug Greve
Sent: 12 September 2008 18:10
To: Bruce Fischl
Cc: freesurfer@nmr.mgh.harvard.edu; Hwee Ling Lee
Subject: Re: [Freesurfer] freesurfer

You can also skip the 1st two steps and just convert aparc+aseg.mgz to
MNI with mri_vol2vol (make sure to use the --interp nearest flag). Then
look for voxels with values 1030 (left STG) or 2030 (right STG).

doug

Bruce Fischl wrote:

> Hi HweeLing,
>
> I think the aparc.a2005s has the STS labeled in it, so you should
> already have what you need in individual space. You could use
> mri_annot2label, mri_label2vol and mri_vol2vol to transform this into
> MNI if you need to.
>
> cheers,
> Bruce
>
>
>
>  On Fri, 12 Sep 2008, Hwee Ling Lee wrote:
>
>>
>> Hi All,
>>
>> I was looking for methods to create a superior temporal sulcus
>> mask (upper and lower boundary).
>>
>>> From my understanding, Freesurfer does a pretty good job in labeling
>>> the
>>
>> sulcus, hence I was wondering if there are possible ways to write the
>> particular ROI as a mask image for each individual subject, and
>> preferably
>> to be in the MNI space or if not, at least in the native space.
>>
>> Thank you.
>>
>> Best wishes,
>> HweeLing
>>
>>
>>
>> -----------------------------------------------------------------------
>> Hwee Ling, Lee
>> Max-Planck Institute for Biological Cybernetics
>> Cognitive Neuroimaging
>> Spemannstrasse 41
>> 72076 Tuebingen
>> Germany
>> Tel: +49-70701-601-1785
>> Fax: +49-7071-601-616
>> hwee-ling.lee@tuebingen.mpg.de
>> hweeling.lee@gmail.com
>> http://www.kyb.mpg.de/~hweeling
>> -----------------------------------------------------------------------
>>
>>
>>
>>
>>
>> _______________________________________________
>> Freesurfer mailing list
>> Freesurfer@nmr.mgh.harvard.edu
>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>>
>>
>>
> _______________________________________________
> Freesurfer mailing list
> Freesurfer@nmr.mgh.harvard.edu
> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>
>

--
Douglas N. Greve, Ph.D.
MGH-NMR Center
greve@nmr.mgh.harvard.edu
Phone Number: 617-724-2358
Fax: 617-726-7422

In order to help us help you, please follow the steps in:
surfer.nmr.mgh.harvard.edu/fswiki/BugReporting


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

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