Hi FS community, I had some questions regarding the mri_segstats command:
1) In the excludeid flag, are the ids the ones shown in the FreeSurferColorLUT.txt? 2) 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? Thanks in advance, Panos _______________________________________________ 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.
