Re: [Freesurfer] How to extract subjects' volume based on mask from spm?

Hi Mingxia, if you have a binarized map, then just use --id 1 with mri_cor2label (not need to for mri_binarize if it is already binary) doug

On 05/21/2013 03:55 AM, zhang mingxia wrote:

Hi Doug,

Thanks very much. A few more question after I read the description of mri_cor2label.

1. there is a compulsory of mri_cor2label: --id (0-255). How can I

find the 'labelid'?

2. If I understand correctly, the final label will be made within

one particular 'labelid'. How if this mask is in more than one labels (Sorry I haven't used Freesurfer for a long time, my understanding is the labelids represent different regions. It may be wrong) ?

3. I have had the binarized mask created from spm, do I also need to

use mri_binarize?

Mingxia

On Mon, May 20, 2013 at 6:51 AM, Douglas N Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> wrote:

Try mri_binarize followed by mri_cor2label
doug





On 05/20/2013 03:57 AM, zhang mingxia wrote:
> Dear Freesurfer experts,
>
> I analyzed functional data by spm and made a mask (analyze
format). I
> have also run recon-all of structural data.
>
> My question is: how to extract mean volume (from structural data) of
> the mask(from spm)?
>
> I only extracted volume(or thickness) of ROI of a label edited by
> myself and annotation file. If I can convert analyze format to a
label
> or annotation file, I can use that method. But how to convert
analyze
> format to a label or annotation?
>
> Or is there any easy way?
>
> Thanks in advance!
>
> Mingxia Zhang
>
>
>
>
>
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