Hi Paula, can you send us a snapshot? The inflated surface can have bumps in it, which usually are not a problem. You can also inflate more using the -n switch. From the surf dir:
mris_inflate -n 10 lh.smoothwm lh.inflated
where 10 is the default and you can increase it to get smoother surfaces.
cheers, Bruce
On Wed, 8 Jul 2009 pcraisan@cc.hut.fi wrote:
Hello,
I have run recon-all for my images but the resulting inflated surface has a lot of bumps on it even after first hand edits to the brainmask and wm volumes. I have tried manually removing the bumps one by one by editing the wm volume but it did not have the effect I was hoping for.
Is there an automatic way to smooth the inflated surface? I have tried using mris_smooth but it also messed up my .curv-file in the process.
Best regards, Paula Räisänen
Helsinki University of Technology, Department of Biomedical Engineering and Computational Science
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