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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Bob Cox
March 09, 2009 01:26PM
You could try the following:

3dSkullStrip to remove the skull from the volume (if not already done), producing dataset askull+orig (say)

Make a connected binary mask with

3dAutomask -prefix A0 askull+orig

Pick out voxels which are in the binary mask and at least one of whose neighbors is NOT in the mask:

3dcalc -a A0+orig -b a+i -c a-i -d a+j -e a-j -f a+k -g a-k -expr 'ispositive(a)*amongst(0,b,c,d,e,f,g)' -prefix AB

The AB+orig dataset may be of use to you as a mask of the edge voxels.

Also, it annoys me a little that you are posting anonymously. Is there a reason?

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Subject Author Posted

Boundary coordinates

AFNI User March 09, 2009 12:56PM

Re: Boundary coordinates

Bob Cox March 09, 2009 01:26PM

Edges, periphery and interiorosity

Daniel Glen March 09, 2009 05:23PM

Re: Edges, periphery and interiorosity

bob cox March 09, 2009 06:01PM

Re: Edges, periphery and interiorosity

Daniel Glen March 10, 2009 04:27PM

Re: Edges, periphery and interiorosity

Daniel Glen March 11, 2009 02:28PM

Re: Boundary coordinates

AFNI User March 10, 2009 07:59AM