$FREESURFER_HOME/FreeSurferColorLUT.txt
On 11/05/2013 05:42 PM, Martin Luessi wrote:
> Hi Doug,
>
> Thanks for your reply. I will do it in Python then ;). Is there a
> table somewhere with a list of values used for each label (17 = left
> hippo etc.)?
>
> Martin
>
> On 11/05/13 17:32, Douglas N Greve wrote:
>> no, sorry, you'll have to do it with matlab. You can do something like
>>
>> mri_vol2vol --mov func.nii --reg register.dat --fstarg --o func.anat.nii
>>
>> aseg = MRIread('aseg.mgz');
>> indroi = find(aseg.vol == 17); % 17 = left hippo
>> func = MRIread('func.anat.nii');
>> funcmat = fast_vol2mat(func);
>> funcroi = funcmat(:,indroi);
>>
>> funcroi will be the ntimepoints by nroivoxels matrix that you are
>> looking for
>>
>> doug
>>
>>
>> On 11/05/2013 05:30 PM, Martin Luessi wrote:
>>> Hi,
>>>
>>> I have fMRI data which has been co-registered with the FS
>>> reconstruction
>>> using "bbregister". I would like to extract the voxel time series for
>>> the voxels in the subcortical labels from the "aseg" subcortical
>>> segmentation. I know that "mri_segstats" can be used with the "--avgwf"
>>> option to extract an average time series for each label, but is there a
>>> way to extract a time series for each voxel inside each label without
>>> averaging?
>>>
>>> Thanks,
>>>
>>> Martin
>>> _______________________________________________
>>> 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
gr...@nmr.mgh.harvard.edu
Phone Number: 617-724-2358
Fax: 617-726-7422
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