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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
History of AFNI updates
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Does this approach work for thresholding group-level analyses?
To be more specific, is the following an appropriate pipeline?
1. 3dFWHMx -acf <separately for each subject's residuals>
2. Average the output of (1) to get average (a,b,c) values
3. 3dClustSim -acf <using a,b,c derived above>
by
efemeri
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AFNI Message Board
Thanks, that makes sense. Would you recommend this approach over using the 3dmerge command with the following options?
-1fmask <mask+orig> -1filter_blur <FWHM value>
by
efemeri
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AFNI Message Board
How does 3dBlurInMask handle voxels at the edge of the mask? I'm trying to avoid 1) letting outside-brain voxels influence inside-brain voxels, but also avoid 2) losing good cortical voxels that are at the edge of the mask.
Thanks!
by
efemeri
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AFNI Message Board
What's the conventional wisdom on the order in which normalization (e.g., to TT_N27) and smoothing should be done?
It seems that normalizing first means that each brain will effectively be subjected to a different size smoothing kernel.
by
efemeri
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AFNI Message Board
If anyone is willing to help educate a neophyte: from a mathematical perspective, why isn't group-level analysis done in a single step?
As I understand 3dDeconvolve, PSC is modeled in terms of 1) nuisance variables (like head motion, scanner drift, etc calculated on a by-run basis) and 2) regressors for each condition of interest (e.g., a gamma function convolved with stim times). The coe
by
efemeri
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AFNI Message Board