Thanks Bruce, Sorry for the naiive questions - I'm still pretty green. If I define a label for, say, the head of the left sternocleidomastoid, using tkmedit, could I then generalize that label to the rest of my patient cohort using mri_label2label?
Thanks, Jeff > Hi Jeff > > our standard segmentation doesn't include muscle. We did have some > prototypes that labeled all cranial muscles but they are not much more > than > prototypes > Bruce > > > On Wed, 1 May 2013, > jwa...@nmr.mgh.harvard.edu wrote: > >> Hello Freesurfers, >> I would like to use the muscle ROI in the LUT (number 123). Can anyone >> tell me which muscles (all cranial? cervical too?) are included? I >> tried making a subject-specific label using the following command: >> mri_cor2label --c >> /cluster/ablood/1/${experimental_directory}/${recons_directory}/${identifier}_recon/mri/aseg.mgz >> --id 123 --l >> /cluster/ablood/1/${experimental_directory}/${recons_directory}/${identifier}_recon/label/muscle_${identifier}.label >> >> This yielded the error "Found 0 label voxels", presumably because >> aseg.mgz >> is skull-stripped. When I used orig.mgz instead of aseg.mgz in the >> command line above, the assigned label is a scattering of single voxels >> throughout the cortex and subcortical white matter. I am guessing that >> this is because orig.mgz is not registered to the same space as aseg.mgz >> - >> is this correct? >> >> Any suggestions for how to use the muscle ROI would be much appreciated. >> >> Thanks, >> Jeff >> _______________________________________________ >> 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 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.