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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Gang Chen
December 07, 2005 02:20PM
Chuck,

> When generating the stimulus file to be used in 3dDeconvolve (in
> which I am specifying each TR of the experiment), do I need to code
> a '1' for each TR that a trial type is occuring, or just put a "1"
> indicating the start of that trial type?

The way to code stimulus files depends on two issues:

(1) How are you going to model the BOLD response of each stimulus?
(2) Which option are you going to use in 3dDeconvolve or waver?

For example, for -input in waver, and deconvolution with -stim_file in 3dDeconvolve, put 1's for all TR's a stimulus covers.

For option -tstim in waver or -stim_times in 3dDeconvolve, provide the onset times of a condition (real time relative to the beginning of the scanning, not 1's) . Duraton of each condition is specified separately (check the usage of waver) or through your model selection in the option of 3dDeconvolve.

Gang
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Subject Author Posted

RE: Stimulus file for fast event related design

Chuck December 07, 2005 11:55AM

RE: Stimulus file for fast event related design

Gang Chen December 07, 2005 02:20PM