Hi Doug, many thanks for your answer, I try to detail it more:
1.- bbregister is registering two Colin27 brains. First one is a 2mm found in spm/canonical/single_subject_T1.nii, and second one is the FS_spm_Canonical found in SurfRend distribution. It was in .COR format and I run recon-all to have a modern version of it. As they are almost the same brain the registration matrix is quite simple and the registration was perfect. This way I had exactly the same ROI-s for Colin27 in SPM and in FS (it did not work that well for fsaverage, that's why I took this approach).
2.- In any case, I have several ROI-s in Colin27 space in FS, and then when I try to obtain average CT values from my subjects I use these 2 different approaches: label2label and surf2surf. mri_anatomical_stats is run on the labels created by mri_label2label.
If you think it will be of help I can send the detailed command line calls, thanks! Gari
On Sat, Sep 22, 2012 at 12:47 AM, Douglas N Greve <greve@nmr.mgh.harvard.edu
wrote:
Hi Gari, I'll need more information. I can't tell what you are doing. Eg, what is being registered with BBR? what is mris_anatomical_stats run on? Where does Colin27 come into it and why? doug
On 09/19/2012 06:15 PM, Garikoitz Lerma-Usabiaga (Gari) wrote:
Dear Freesurfers, We've been comparing 2 different methods to obtain CT averages for 4
Volume ROI-s (volume ROI-s were in Colin27 space).
We've used the 40 buckner subjects for the comparisons.
METHOD L2L: bbregister>> mri_vol2surf (mgh)>> mri_binarize
(mgh)>> mri_cor2label (label)>> mri_label2label>> mris_anatomical_stats
METHOD S2S: bbregister>> mri_vol2surf>> mri_preproc
(mri_surf2surf)>> mri_segstats
After performing t-test-s over the results, we can observe that the
results are in many cases different.
-- Is there a way to choose the "best" method? Which one should we use
for our work and why?
Many thanks again for your help, Gari
PD We've tabulated a third method as well: METHOD SurfRend: Surfrend (.w)>> mri_surf2surf(.mgh)>>
mri_binarize(.mgh)>> mri_cor2label (.label)>> mris_anatomical_stats
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