You can use preproc-sess and specify the --meas flag. Run with --help for more info.
On 10/18/18 2:08 PM, ts...@rcmd.org wrote: > External Email - Use Caution > > Dear FreeSurfer experts, > > I have created a custom measure on the pial surface of a number of subjects, > and I would like to map the data to the fsaverage subject. (By custom measure > I mean something like 'area' or 'curv', i.e., one scalar value per surface > vertex.) > > I have already done the same for the white surfaces, and it was pretty > straight-forward: > 1) Save the per-vertex data in a curv-format file in > SUBJECTS_DIR/<subject>/surf/?h.<measure> > 2) Run 'recon-all -s <subject> -qcache -measure <measure>' > > This will map the data to fsaverage and create files named > ?h.<measure>.fwhm<n>.fsaverage.mgh in the surf/ directories as expected > (where <n> is 0, 5, .., 25). > > My question is: how can I do the same for my data from the pial surface? Are > there any command line options for 'recon-all' (or maybe for mris_preproc) > that can do this? > > I already tried to put the pial per-vertex data into files named > SUBJECTS_DIR/<subject>/surf/?h.pial.<measure>, but they are not handled by > the recon-all command listed above: no fsaverage files show up for them. > > Thanks in advance, > > Tim > > -- > Dr. Tim Schäfer > Postdoc Computational Neuroimaging > Department of Child and Adolescent Psychiatry, Psychosomatics and > Psychotherapy > University Hospital Frankfurt, Goethe University Frankfurt am Main, Germany > > _______________________________________________ > 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
