In the freesurfer dev releases post 2006-18-01, there is a -noaseg flag in recon-all. It will skip the auto-segmentation step, and not include aseg.mgz in any subsequent processing (eg. wm seg and filling). The flag is intended for usage with baby brains and non-human primates, as these brains cannot be auto-segmented with the default atlas (which is based on 40 adult normals).
On Wed, 2006-02-22 at 18:19 +0100, Sebastian Moeller wrote: > Dear all, > > at the moment I am struggling with flattening monkey anatomical scans. > Specifically I manually got to the point where I get a wm.mgz and now I > want to inflate it. My instructions refer to using csurf, which does > not like my mgz volumes and is deprecated IIRC, the alternative is > hooking my data into the recon-all pipe-line. But that fails as I do > not have any aseg.mgz (does the segmentation work for monkeys?). So any > advice on how to proceed with the processing? > > Ahoi & Thanks > Sebastian _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
