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 21, 2020 08:42AM
Hi, Robin-

The blurring "default" is 4mm for no deep reason-- that is, it is not necessarily a "recommended" value, it is just a place holder. Note that for typical EPI voxel sizes with edges of ~3-4mm per side, this would result in very minimal smoothing. If you want noticeable smoothing, maybe having a value 2x your voxel edge length would be more noticeable.

As to the pros/cons of smoothing in terms of strengthening some signals and potentially washing out some small regions... yep, life is full of tradeoffs! But note that Bob developed the ETAC methodology *specifically* to address+reduce the arbitrariness of smoothing values on final cluster results; see this paper:
[www.biorxiv.org]
[www.liebertpub.com]
This methodology would involve *not* smoothing your initial data, and then using different blur sizes later on, and combining all results "equitably" (while also combining results across different semi-arbitrary voxelwise threshold values, too!).

--pt
Subject Author Posted

Updated AFNI pre-proc pipeline

Robin February 21, 2020 06:51AM

Re: Updated AFNI pre-proc pipeline

ptaylor February 21, 2020 07:17AM

Re: Updated AFNI pre-proc pipeline

Robin February 21, 2020 08:23AM

Re: Updated AFNI pre-proc pipeline

ptaylor February 21, 2020 08:42AM

Re: Updated AFNI pre-proc pipeline

Robin February 21, 2020 08:57AM

Re: Updated AFNI pre-proc pipeline

Robin February 21, 2020 09:24AM

Re: Updated AFNI pre-proc pipeline

ptaylor February 21, 2020 09:35AM

Re: Updated AFNI pre-proc pipeline Attachments

Robin February 24, 2020 04:53AM

Re: Updated AFNI pre-proc pipeline

ptaylor February 24, 2020 07:43AM

Re: Updated AFNI pre-proc pipeline

Robin February 24, 2020 07:59AM

Re: Updated AFNI pre-proc pipeline

Robin March 02, 2020 03:02AM

Re: Updated AFNI pre-proc pipeline

rick reynolds March 03, 2020 09:51AM

Re: Updated AFNI pre-proc pipeline

Robin March 03, 2020 04:15PM

Re: Updated AFNI pre-proc pipeline

krisknut March 11, 2020 02:35PM

Re: Updated AFNI pre-proc pipeline

rick reynolds March 11, 2020 04:35PM