Hi Jeni, usually you smooth with surf2surf and include a mask or label
to indicate that it should only be smoothed inside the mask/label.
mri_glmfit will create a mask from non-zero voxels; if you ask glmfit to
smooth, then it will only smooth inside of the mask. If you smooth using
surf2surf, then do not smooth using glmfit.
doug
On 7/29/12 11:49 PM, Jeni Chen wrote:
Now I'm confused... So if I included a mask in my GLM analysis (which
I did), then I should add the -fwhm option in mri_glmfit? If that's
the case, does that mean my -y input file should be unsmoothed to
avoid double-smoothing?
Jeni
On 2012-07-29, at 11:31 PM, Douglas Greve wrote:
Mostly yes. The one in mri_glmfit will also do smoothing within a
given mask by default, but basically they do the same thing.
doug
On 7/29/12 11:15 PM, Jeni Chen wrote:
So essentially the -fwhm option in mri_glmfit does the same thing
as mri_surf2surf --fwhm ? Just want to make sure... Thanks again!
Jeni
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