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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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Dear Rick,
Thank you so much for replying so quickly!
In fact, in looking in the directory, 3dSkullStrip had, in fact, done the operation and created a skull-stripped brain image file.
Now trying to do cortical reconstruction with it in FreeSurfer... will see how it goes...
Thanks again and best,
Celia
by
CeliaG
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AFNI Message Board
P.S. These are the scripts I tried. (Could you please tell me what a base is, and how I get one? transformation matrix to rotate my pig brain MRI maybe? I have no idea how to get this)
- Celia
celiagellman% 3dQwarp -source r01_MC+orig.HEAD -prefix qwarp-output-r01_MC+orig -lpc -verb -iwarp -blur 0 3
++ OpenMP thread count = 2
++ 3dQwarp: AFNI version=AFNI_2011_12_21_1014 (Jul 17
by
CeliaG
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AFNI Message Board
Dear AFNI Community,
Hello!! I am a newbie trying ultimately to get a cortical reconstruction of a minipig brain (with implanted microelectrode array).
Tried first in FreeSurfer but obviously the software would give an error as pig brains won't align with Talairach coordinates.
Anyway, present problem/ question:
I am following the pipeline outlined in a poster* to strip the pig skull
by
CeliaG
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AFNI Message Board