Thanks very much for your response, Bruce. We already collect T2 in our
scanner -- not sure about FLAIR. Is there a way for them to work
analogously with the mri_make_surfaces command (as outlined here)?:
FreeSurfer command to correct dura:
mris_make_surfaces –dura filename_%d.mgz
-${lastecho}
-aseg aseg.auto.mgz
-mgz
-sdir ${SUBJECTS_DIR}
-output _dura_1and${lastecho}
$({target} ${hemi}
where filename_%d.mgz refers to the four separated echoes of the MEMPRAGE
and lastecho = 4
Generates:
lh.pial_dura_1and4, rh.pial_dura_1and4,
lh.white_dura_1and4, rh.white_dura_1and4
Thanks again for your help!
On Tue, May 7, 2013 at 2:24 PM, Bruce Fischl <fis...@nmr.mgh.harvard.edu>wrote:
> Hi Katie
>
> I'm really not sure. These days I would recommend a highres (e.g. 1mm
> isotropic) FLAIR if you can get one, or T2 if not. The T2* can help, but
> it's pretty noisy in brain.
>
> cheers
> Bruce
>
>
> On Tue, 7 May 2013, Katie Surrence wrote:
>
> Dear Freesurfer gurus,
>>
>> At the course, André van der Kouwe mentioned in his morphometry methods
>> talk that T2* weighted contrast from
>> MEMPRAGE could be used to further seperate dura from cortex, as also
>> discussed in this paper:
>> http://www.ncbi.nlm.nih.gov/**pmc/articles/PMC2408694/<http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2408694/>.
>> We have a GE scanner in our lab. The internet suggests
>> that a Multi-echo FSPGR/FGRE exists. Would this be the analog? Would it
>> work the same way? Could you also
>> use these images with the mris_make_surfaces command?
>>
>> Thanks very much for your insight -- and I enjoyed the course!
>>
>> /Katie Surrence
>>
>> --
>> Research Coordinator
>> Social Cognition Laboratory
>> New York State Psychiatric Institute
>>
>>
>>
>
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