External Email - Use Caution indeed. I would like to merge two regions and extract the fMRI time serie. if no difference is there, somewhat is wrong. the L-VP file contains the same information of ThalamicNuclei.v10.T1.
thanks > Il 13 maggio 2020 alle 17.02 "Douglas N. Greve" <dgr...@mgh.harvard.edu> ha > scritto: > > That means there is no difference > > On 5/13/2020 10:47 AM, std...@virgilio.it mailto:std...@virgilio.it wrote: > > > > > > External Email - Use Caution > > > > is the command line ok? > > > > by running > > > > mri_binarize --i ThalamicNuclei.v10.T1.mgz --replace-only 8130 8133 > > --o L-VP.mgz > > > > mri_diff --po mri/ThalamicNuclei.v10.T1.mgz L-VP.mgz > > > > I obtain > > diffcount 0 > > > > > > > > > > > Il 12 maggio 2020 alle 0.53 std...@virgilio.it > > mailto:std...@virgilio.it ha scritto: > > > > > > by running > > > mri_diff --po mri/ThalamicNuclei.v10.T1.mgz L-VP.mgz > > > I obtain > > > diffcount 0 > > > > > > > > > > > > > > > > Il 11 maggio 2020 alle 19.18 "Douglas N. Greve" > > > <dgr...@mgh.harvard.edu> mailto:dgr...@mgh.harvard.edu ha scritto: > > > > > > > > Try running this to see if there is a difference > > > > mri_diff --po ThalamicNuclei.v10.T1.mgz > > > > Left-Ventroposterior.mgz > > > > Sometimes it is not easy to see a difference that is > > > > just a few voxels > > > > > > > > On 5/11/2020 3:02 AM, std...@virgilio.it > > > > mailto:std...@virgilio.it wrote: > > > > > > > > > > > > > > > > > > External Email - Use Caution > > > > > > > > > > By visualizing the output by freeview, I found > > > > > that it was the same of ThalamicNuclei.v10.T1.mgz. > > > > > > > > > > Thanks > > > > > > > > > > > > > > > > Il 11 > > > > > maggio 2020 alle 2.19 Bruce Fischl < fis...@nmr.mgh.harvard.edu > > > > > mailto:fis...@nmr.mgh.harvard.edu > ha scritto: > > > > > > > > > > > > > > > > > > Hi Stefano > > > > > > > > > > > > can you elaborate? Why do you suspect there > > > > > > is an error? > > > > > > > > > > > > cheers > > > > > > Bruce > > > > > > On Mon, 11 May > > > > > > 2020, std...@virgilio.it > > > > > > mailto:std...@virgilio.it wrote: > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > External Email - Use Caution > > > > > > > > > > > > > > Please, could you check the command > > > > > > > line. > > > > > > > I suspect that an error is there. > > > > > > > Thanks. > > > > > > > Stefano > > > > > > > > > > > > > > mri_binarize --i > > > > > > > ThalamicNuclei.v10.T1.mgz --replace-only 8130 8133 --o > > > > > > > Left-Ventroposterior.mgz > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > Il 30 aprile 2020 alle 18.51 "Douglas N. Greve" > > > > > > > < dgr...@mgh.harvard.edu > > > > > > > mailto:dgr...@mgh.harvard.edu > ha scritto: > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > You can use mri_binarize --i ThalamicNuclei.v10.T1.mgz > > > > > > > --replace-only segid segidreplace ... > > > > > > > --o newseg.mgz > > > > > > > to create a new segmentation with > > > > > > > merged segments, then using > > > > > > > vol2subfield with the newseg seg as > > > > > > > --sf > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > On 4/29/2020 7:57 PM, std...@virgilio.it > > > > > > mailto:std...@virgilio.it wrote: > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > External Email - Use Caution > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > Hi list, > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > vol2subfield --i fmcpr.nii.gz --reg register.dof6.lta --sf > > > > > > > ThalamicNuclei.v10.T1.mgz --stats > > > > > > > stats.dat --avgwf > > > > > > > avgwf.dat --avgwfvol avgwfvol.mgz --o > > > > > > > f2subf.nii.gz > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > extracts the time course from each thalamic subregions. > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > If I would like to merge multiple regions (e.g. --id 8115 > > > > > > > --id 8116) and extract a single time > > > > > > > course from them, > > > > > > > which is the way? > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > Thanks > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > Stefano > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > _______________________________________________ > > > > > > > Freesurfer mailing list > > > > > > > Freesurfer@nmr.mgh.harvard.edu > > > > > > > mailto:Freesurfer@nmr.mgh.harvard.edu > > > > > > > > > > > > > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > > > > > > > > > > > > > > > > > > > > > > > > > _______________________________________________ > > > > > > > Freesurfer mailing list > > > > > > > Freesurfer@nmr.mgh.harvard.edu > > > > > > > mailto:Freesurfer@nmr.mgh.harvard.edu > > > > > > > > > > > > > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > _______________________________________________ > > > > > > Freesurfer mailing list > > > > > > Freesurfer@nmr.mgh.harvard.edu > > > > > > mailto: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. 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