External Email - Use Caution
Moreover, how can I merge, with mri_binarize, more thalamic regions?
e.g. 8204 8205 8206 8217 8218
Il 13 maggio 2020 alle 23.03 "Douglas N. Greve" dgreve@mgh.harvard.edu ha scritto:
It problably means that seg 8130 does not exist in the input mgz. Can you confirm that it does? On 5/13/2020 12:51 PM, stdp82@virgilio.it mailto:stdp82@virgilio.it wrote: > >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" <dgreve@mgh.harvard.edu> mailto:dgreve@mgh.harvard.edu ha scritto:That means there is no difference On 5/13/2020 10:47 AM, stdp82@virgilio.it mailto:stdp82@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 stdp82@virgilio.it mailto:stdp82@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" <dgreve@mgh.harvard.edu> mailto:dgreve@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, stdp82@virgilio.it mailto:stdp82@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 < fischl@nmr.mgh.harvard.edu mailto:fischl@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, stdp82@virgilio.it mailto:stdp82@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" > > > < dgreve@mgh.harvard.edu mailto:dgreve@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, stdp82@virgilio.it mailto:stdp82@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 > > > > > > > > > > > > > > > > > >
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