Re: [Freesurfer] hippocampal subfields as masks for mri_segstats
Try using this instead lh.hippoAmygLabels-T1.v21.FSvoxelSpace.mgz On 12/4/19 5:09 PM, Marcel Heers wrote: > > External Email - Use Caution > > Dear all, (dear Eugenio), > > I would like to use hippocampal subfields as masks for mri_segstats to > retrieve intensity values. I am having problems loading the subfields > file although it works fine with aseg.mgz. > > Does anyone know the cause? > > Thank you in advance! > > Best regards > Marcel > > mri_segstats --seg $SUBJECTS_DIR/test/mri/aseg.mgz --ctab-default > --sum output.txt --in $SUBJECTS_DIR/test/mri/T1.mgz > > mri_segstats --seg > $SUBJECTS_DIR/test/mri/lh.hippoAymgLabels-T1.v21.HBT.mgz --sum > output.txt --in $SUBJECTS_DIR/test/mri/T1.mgz > > ERROR: loading $SUBJECTS_DIR/test/mri/lh.hippoAymgLabels-T1.v21.HBT.mgz > > ___ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Re: [Freesurfer] hippocampal subfields as masks for mri_segstats
I believe the problem is that they live in different voxel spaces (Doug, can you please clarify?) Cheers, /Eugenio Juan Eugenio Iglesias Senior research fellow CMIC (UCL), MGH (HMS) and CSAIL (MIT) http://www.jeiglesias.com From: on behalf of Marcel Heers Reply-To: Freesurfer support list Date: Wednesday, 4 December 2019 at 17:10 To: "Freesurfer@nmr.mgh.harvard.edu" Subject: [Freesurfer] hippocampal subfields as masks for mri_segstats External Email - Use Caution Dear all, (dear Eugenio), I would like to use hippocampal subfields as masks for mri_segstats to retrieve intensity values. I am having problems loading the subfields file although it works fine with aseg.mgz. Does anyone know the cause? Thank you in advance! Best regards Marcel mri_segstats --seg $SUBJECTS_DIR/test/mri/aseg.mgz --ctab-default --sum output.txt --in $SUBJECTS_DIR/test/mri/T1.mgz mri_segstats --seg $SUBJECTS_DIR/test/mri/lh.hippoAymgLabels-T1.v21.HBT.mgz --sum output.txt --in $SUBJECTS_DIR/test/mri/T1.mgz ERROR: loading $SUBJECTS_DIR/test/mri/lh.hippoAymgLabels-T1.v21.HBT.mgz ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
[Freesurfer] hippocampal subfields as masks for mri_segstats
External Email - Use Caution Dear all, (dear Eugenio), I would like to use hippocampal subfields as masks for mri_segstats to retrieve intensity values. I am having problems loading the subfields file although it works fine with aseg.mgz. Does anyone know the cause? Thank you in advance! Best regards Marcel mri_segstats --seg $SUBJECTS_DIR/test/mri/aseg.mgz --ctab-default --sum output.txt --in $SUBJECTS_DIR/test/mri/T1.mgz mri_segstats --seg $SUBJECTS_DIR/test/mri/lh.hippoAymgLabels-T1.v21.HBT.mgz --sum output.txt --in $SUBJECTS_DIR/test/mri/T1.mgz ERROR: loading $SUBJECTS_DIR/test/mri/lh.hippoAymgLabels-T1.v21.HBT.mgz ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
