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

History of AFNI updates  

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February 09, 2017 06:20PM
CT has some advantages over MRI regarding skullstripping. If your data is in standard Hounsfeld units, you can remove skull by intensity. To get brain only, you can then use something like 3dSkullStrip.


# take data only between intensities of 830-1300
3dcalc -a CT+orig'<830..1300>' -expr a -prefix CT_noskull
# get brain only
3dSkullStrip -prefix test_CT_ns -orig_vol -input CTnoskull3+orig.

If there has been surgery done, then that can be more complicated, and you may need to try some options like the "push_to_edge" or smoothing operations.
Subject Author Posted

Skull stripping CT

tpieters February 09, 2017 10:51AM

Re: Skull stripping CT

Daniel Glen February 09, 2017 06:20PM

Re: Skull stripping CT

muschellij2 May 15, 2017 02:12PM

Re: Skull stripping CT

discoraj February 20, 2017 01:40PM