On 4/18/14 3:32 PM, pfotiad@nmr.mgh.harvard.edu wrote:
Hi FS community,
I had some questions regarding the mri_segstats command:
- In the excludeid flag, are the ids the ones shown in the
FreeSurferColorLUT.txt?
Yes
- In case I would like to measure the mean intensity of the orig file as
outlined in the second example in https://surfer.nmr.mgh.harvard.edu/fswiki/mri_segstats:
mri_segstats --seg $SUBJECTS_DIR/bert/mri/aseg --ctab $FREESURFER_HOME/FreeSurferColorLUT.txt --nonempty --excludeid 0 --sum bert.aseg.sum --in $SUBJECTS_DIR/bert/mri/orig
is the --seg flag necessary in order to calculate only the mean intensity within the skull, or does it serve another purpose?
The seg defines the segmentations (eg, 17 is hippocampus)
Thanks in advance, Panos _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer