mri_segstats --seg mask.mgh --id 1 --i /fMRI/2D/freesurfer/fsaverage_sym/surf/lh.area --sum sum.dat
On Tue, Jun 11, 2013 at 10:41 AM, Douglas Greve <gr...@nmr.mgh.harvard.edu>wrote: > what is your full command line? > > > On 6/11/13 10:04 AM, Glen Lee wrote: > > thanks Doug. > it worked and I got the following result on which I have clarifying > questions: > > -------------- > Voxel Volume is 1 mm^3 > Generating list of segmentation ids > Found 1 segmentations > Computing statistics for each segmentation > 0 1 81837 81837 > ---------------- > > 1) I'm assuming that voxel here refers to vertex since I'm submitting > the surface data. > > 2) what does 'found 1 segmentations mean'? > > 3) the dimension is 81837mm^2, correct? > > > > > On Tue, Jun 11, 2013 at 12:31 AM, Douglas Greve < > gr...@nmr.mgh.harvard.edu> wrote: > >> It's --sum for this, not --o >> doug >> >> >> On 6/10/13 4:44 PM, Glen Lee wrote: >> >> Thanks Doug! >> >> I just tried, but I got an error: >> mri_segstats --seg mask.mgh --id 1 --i >> /fMRI/2D/freesurfer/fsaverage_sym/surf/lh.area --o sum.dat >> ERROR: Option --o unknown >> >> I don't see --o option when I looked up mri_segstats --help either. >> FYI, I'm using v5.1. >> Any idea? >> >> >> >> On Mon, Jun 10, 2013 at 3:39 PM, Douglas N Greve < >> gr...@nmr.mgh.harvard.edu> wrote: >> >>> >>> Hi Glen, you can use >>> >>> mri_segstats --seg mask.mgh --id 1 --i >>> $SUBJECTS_DIR/fsaverage_sym/surf/lh.area --o sum.dat >>> >>> doug >>> >>> >>> On 06/10/2013 03:17 PM, Glen Lee wrote: >>> > Dear freesurfer users >>> > >>> > I'm wondering if there is any way of figuring out the surface size >>> > within a mask image (mask.mgh) >>> > which is generated after running a group-level GLM analysis (2nd RFX) >>> > using mri_glmfit. >>> > >>> > As I'm thinking, this may be: >>> > number of vertex by dimension of one vertex (1mm). >>> > >>> > But I could be wrong and let me know if anyone knows the solution. >>> > >>> > -Glen >>> > >>> > fyi) the group analysis was performed in freesurfer sym space. >>> > >>> > >>> > >>> > _______________________________________________ >>> > 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: https://gate.nmr.mgh.harvard.edu/filedrop2 >>> www.nmr.mgh.harvard.edu/facility/filedrop/index.html >>> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ >>> >>> _______________________________________________ >>> 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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