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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March 24, 2008 09:52AM
Ideally, you would use -stim_times_AM3 -- but that option doesn't exist at the current time coordinate. If you use -stim_times_AM2 twice, as you describe, and then use -GOFORIT to push on past the collinearity warning, what will happen is that the two identical regressors will each get half the beta weight due to the mean response. And they will each have a small t-statistic. If you don't care about the mean response at all (e.g., run that separately to get an activation map for the main effect), then you can proceed. But you should be careful to examine your results to make sure that they make sense.

An alternative would be to run with -stim_times_IM and get the coefficients for each event separately. Then you'd have the problem of regressing the collection of event amplitudes in each voxel against your A and B parameters. That itself could be done with 3dDeconvolve, using the appropriate pieces of the -cbucket output from the first run as the input to this second run, and using -stim_file inputs with the A and B amplitudes, and using -polort 0 to pick up the mean.

Other clever things could be done with the -stim_times_IM output -- that's up to your imagination.
Subject Author Posted

AM and multiple regressors

Giorgio Ganis March 23, 2008 12:00PM

Re: AM and multiple regressors

bob cox March 24, 2008 09:52AM

Re: AM and multiple regressors

Giorgio Ganis March 24, 2008 11:07AM

Re: AM and multiple regressors

Aaron Mattfeld July 28, 2008 06:44PM