Thanks Doug and Bruce! this is the process I followed (just in case is of help for somebody else). Questions below.
One subject to fsaverage mri_vol2vol --mov $SUBJECTS_DIR/fsaverage/label/myROI.nii --o $SUBJECTS_DIR/fsaverage/label/myROI.mgh --reg from_mySubject_to_fsaverage.dat --targ fsaverage/mri/T1.mgz .mgh to .label mri_cor2label --i $SUBJECTS_DIR/fsaverage/label/myROI.mgh --id 1 --l $SUBJECTS_DIR/fsaverage/label/myROI.label .label in fsaverage to rest of subjects mri_label2label --srcsubject fsaverage --srclabel $SUBJECTS_DIR/fsaverage/label/myROI.label --trgsubject S_01 --trglabel $SUBJECTS_DIR/S_01/label/myROI.label --regmethod volume .label to .mgh mri_label2vol --label $SUBJECTS_DIR/S_01/label/myROI.label --o $SUBJECTS_DIR/S_01/label/myROI.mgh --identity --temp $SUBJECTS_DIR/S_01/mri/T1.mgz statistics with mri_segstats and myROI.mgh My question is: how can I save couple of steps? 1.- Can I use mri_vol2vol as mri_label2label, just specifying the source and target subjects without knowing the reg matrix? I couldn't make it work... or at least: 2.- Is it possible to use .label with mri_segstats? I am not interested in the .label in any case but... many thanks again for your help! Gari On Wednesday, July 3, 2013, Douglas Greve wrote: > > Hi Gari, use --targ for a target volume (not a subject) to use as the > template for the output. The target subject is actually stored in the > register.dat file, so you can just spec --fstarg (no arguments) > doug > > > > > On 7/1/13 2:45 PM, Garikoitz Lerma-Usabiaga wrote: > > Hi, > I want to obtain volume statistics from a ROI in fsaverage. > I have register.dat and a .nii file (the ROI), but I don't now how to get > to the .label. > > The last try has been: > mri_vol2vol --mov $SUBJECTS_DIR/fsaverage/label/ROI.nii > --o $SUBJECTS_DIR/fsaverage/label/ROI.mgh > --reg > $SUBJECTS_DIR/fsaverage/mri/transforms/my_own_register_created_with_bbregister.dat > --targ > fsaverage > > (but it is failing, error: > corRead(): can't open file $SUBJECTS_DIR/fsaverage/COR-.info) > > My next steps were: > cor2label (in fsaverage) > mri_label2label (per every subject) > mri_segstats (per every subject) > > > Is there any simpler method to accomplish the same? Or at least that it > works? > many thanks, > Gari > > > _______________________________________________ > Freesurfer mailing > listfreesur...@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > >
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