AFNI Message Board

Dear AFNI users-

We are very pleased to announce that the new AFNI Message Board framework is up! Please join us at:

https://discuss.afni.nimh.nih.gov

Existing user accounts have been migrated, so returning users can login by requesting a password reset. New users can create accounts, as well, through a standard account creation process. Please note that these setup emails might initially go to spam folders (esp. for NIH users!), so please check those locations in the beginning.

The current Message Board discussion threads have been migrated to the new framework. The current Message Board will remain visible, but read-only, for a little while.

Sincerely, AFNI HQ

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rick reynolds
August 04, 2015 12:48PM
Hi Gustavo,

1) It might not map exactly. Would mri_surf2surf apply
a 10 mm blur, or would it blur until the estimated blur
is 10 mm? SurfSmooth does the latter.

The difference is not so huge though, probably on the
order of a voxel.


2) Yes, vol_mask really applies to mapping lower
resolution volumetric data to the surface (e.g. EPI).


3) Unfortunately, slow_surf_clustsim.py has not been
enhanced to do both hemispheres at once, which is the
more appropriate way to go.

Nick seems to have implemented this as part of his
PyMVPA package, so you could consider that option.
See this post: afni.nimh.nih.gov

4) Using an amygdala surface complicates matters,
since it is not a cortical surface (it should not be
a part of the typical surfaces output by FreeSurfer).
In this case, I think you would still want to run
SSC.py "on the surface", but using the amygdala.

- rick
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Subject Author Posted

questions about slow_surf_clustsim.py

gsudre July 31, 2015 06:44PM

Re: questions about slow_surf_clustsim.py

rick reynolds August 04, 2015 12:48PM