Thanks. After reading up on the wiki it seems that a more general solution I'm loking for would be to somehow get the contents of ?h.aparc.annot into ascii form. I know mris_annotation2label will kind of do this, but it creates one file for every label. What I'm loooking for is a single file with n rows corresponding to the n vertices in ?h.pial, and then next to each one, a number representing what label it belongs to (or what value to look up in the LUT). can this be done somehow, or at the very least can I get the contents of ?h.*.annot into ascii format so I can manipulate things.
thanks, mishkin On Tue, Apr 7, 2009 at 1:05 PM, Bruce Fischl <fis...@nmr.mgh.harvard.edu> wrote: > Hi Mishkin, > > yes, the ?h.cortex.label should be created for every subject that labels the > cortical regions of the surface. > > cheers, > Bruce > On Tue, 7 Apr 2009, Mishkin Derakhshan wrote: > >> Hello list, >> I would like to create a mask on fsaverage/surf/?h.pial that masks out >> the areas where the surface does not follow the cortex, but is just >> cutting across the mid line or across the brain stem. I know >> Freesurfer does this to maintain the surface toplogy, and I think it >> only does this in these two areas. >> Does a simple txt file with n vertices and a 0 or 1 value at each >> vertex exist somewhere? Has anyone on the list bothered to label this >> area manually and would be willing to share? >> thanks, >> mishkin >> _______________________________________________ >> 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
