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
May 18, 2012 07:20PM
For the most part, AFNI is setup for 3D computations. To do things slice wise, it might be simplest to cut the dataset into 1 slice thick pieces, operate on those, then glue them back together. The cutting can be done with program 3dZcutup and the glueing with program 3dZcat. The masking with 3dAutomask (if the slices are not too dim, it should work) plus 3dcalc, and the calculation of the average of nonzero values in the masked dataset with 3dBrickStat.

You'll have to read the help for each of these programs. Or hope that Daniel Glen chimes in with a script.
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Subject Author Posted

Slice-by-slice normalization

Matt May 18, 2012 06:54PM

Re: Slice-by-slice normalization

Bob Cox May 18, 2012 07:20PM

Re: Slice-by-slice normalization

Daniel Glen May 20, 2012 10:10AM

Re: Slice-by-slice normalization

Matt May 25, 2012 12:31PM