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 <gr...@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 > > _______________________________________________ > > 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 > > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > The information in this e-mail is intended only for the person to whom it > is > addressed. If you believe this e-mail was sent to you in error and the > e-mail > contains patient information, please contact the Partners Compliance > HelpLine at > http://www.partners.org/complianceline . If the e-mail was sent to you in > error > but does not contain patient information, please contact the sender and > properly > dispose of the e-mail. > >
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