You need to include a --surf arg to mri_cor2label. Look at the --help
On 12/15/2016 09:41 AM, Niia Nikolova wrote: > Dear Freesurfers, > > I have some binary ROI masks of MT/V5 that I’ve drawn from activation > maps in fslview, which I would like to transform into labels so that I > can project them onto a surface and flat patch. > > I have been following parts of this thread > > https://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg32468.html > > and have tried using mri_vol2surf and mri_cor2label, but I cannot view > the result either with tksurfer or freeview. I would like to be able > to load the subjects inflated surface with tksurfer, and add the mask > as a label, or something similar. > > The commands I’ve used are as follows: > > mri_vol2surf —src MST_L_bin.nii.gz —out MST_L_surf.mgh —out_type mgh > —hemi lh —srcreg MST_L_to_BGimage.dat —projdist 0.5 —ref MST_L_bin.nii.gz > > mri_cor2label —i MST_L_surf.mgh --id 1 —l lh.mst.label > > I previously created MST_L_to_BGimage using fslregister. I am also > attaching the input mask file as well as the label file that I > generated in this way. > > Are these the right programs to use in this case, and if so, what is > the appropriate way of using them? > > Thank you in advance for any help. > > Sincerely, > Niia > > > > > > > > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ 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.
