Hi Bruce sorry, meant sphere.reg. Shall try increasing some rigidity. And should have occurred to me to look at aparc.annot.

Thanks for the early Sunday morning reply (!),

cheers, Fred

On 27 Apr 2008, at 16:22, Bruce Fischl wrote:

Hi Fred,

Do you mean the ?h.sphere or the ?h.sphere.reg? We actully found in a couple of recent papers that optimal Brodmann area alignment is obtained when the morph is much less flexible than our typical one. The most recent dev version of mris_register uses the default parameters -dist 5 -parea 0.2. I think you can either edit recon-all or use the xopts stuff to use these if you want. However, since the morphometry calculations are all done in native space it probably won't make much difference. We typically verify the morph correctness by visually inspecting the ?h.aparc.annot for accuracy.

cheers, Bruce

On Sun, 27 Apr 2008, Fred Dick wrote:

...

Dear Bruce et al.,

I noticed a while back that there was a thread on local distortions (too much stretching + curlicues) popping up after mris_sphere; we've seen similar things, and thus far haven't been able to fix them by tweaking options. Is there any update on this?

More generally, are there some example images of sphere.reg's that you all would rate good/acceptable/not so hot/definitely bad for morphological analysis purposes?

Apologies in advance if this has been covered previously and I missed it.

best, Fred Dick _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer