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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September 28, 2020 01:22PM
Hi-

Well, there is the program p2dsetstat that can convert a p-value to a statistic, based on your dset (AFNI stats calculation store necessary information like degrees of freedom in the header of a stat):
[afni.nimh.nih.gov]
... and its complement is inventively named dsetstat2p:
[afni.nimh.nih.gov]
Note that you want to make sure that you are using appropriate sidedness when doing this:
[onlinelibrary.wiley.com]
It sounds like you have a two-sided test-- this is what most testing in MRI studies is, though it can be difficult to do this in some (other) software.

Note also that we typically recommend using both the effect estimate part of the modeling (the beta) as well as the statistic information. In particular we suggest visualizing the beta coefficients of modeling and just thresholding the stat, with the utility of this explained here:
[pubmed.ncbi.nlm.nih.gov]
... with the mechanics of doing so in AFNI explained here:
[www.youtube.com]
We have moved toward liking the "A" and "B" button features in the GUI, explained toward the end of this video, for using the "alpha" channel and "boxing" of results to display both suprathreshold and subthreshold data together in a manageable way.

This video also works in clustering in the GUI:
[www.youtube.com]

That might be more reading and viewing than you wanted.... but hopefully it provides some useful background thoughts on data presentation and threshold considerations.

--pt
Subject Author Posted

Using 3dcalc to calculate common active voxels between two conditions

kbandrew September 24, 2020 09:25PM

Re: Using 3dcalc to calculate common active voxels between two conditions

RWCox September 25, 2020 12:48PM

Re: Using 3dcalc to calculate common active voxels between two conditions

kbandrew September 25, 2020 04:40PM

Re: Using 3dcalc to calculate common active voxels between two conditions

ptaylor September 28, 2020 01:22PM

Re: Using 3dcalc to calculate common active voxels between two conditions

kbandrew October 07, 2020 01:17AM