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  

Previous Message Next Message
Message List New Topic Print View
|
Gabe Castillo
February 17, 2009 01:16PM
Hello,
I am trying to use 3dDeconvolve with the "stim_times" option in a similar fashion to an old analysis without stim_times(using stim_file). Previously no response model/function was input, and a "stim_minlag" and "stim_maxlag" was specified in TR's . How would I replicate this analysis using the stim_fimes option? I have pasted an excerpt from the old deconvolution script below:


3dDeconvolve \
-input $i.allruns.3dreg+orig \
-automask \
-concat /data/afni/1dtemplates/cat.1D \
-polort 3 \
-nofull_first \
-bout \
-num_stimts 2 \
-stim_file 1 /data/afni/1dtemplates/all_auditory.1D \
-stim_label 1 "all_aud" \
-stim_minlag 1 0 \
-stim_maxlag 1 11 \
-stim_file 2 /data/afni/1dtemplates/all_visual.1D \
-stim_label 2 "all_vis" \
-stim_minlag 2 0 \
-stim_maxlag 2 11 \
-iresp 1 $i.timing_collapsed_SI.AUD.iresp.12 \
-iresp 2 $i.timing_collapsed_SI.VIS.iresp.12 \
-rout -tout -fout \
-bucket $i.timing_collapsed_SI.decon.cond.12 \
-jobs 2

Thanks in Advance,
Gabe
Reply Quote
RSS
Subject Author Posted

Using 3dDeconvolve "stim_times" without a response model with minlag and maxlag

Gabe Castillo February 17, 2009 01:16PM

Re: Using 3dDeconvolve "stim_times" without a response model with minlag and maxlag

rick reynolds February 17, 2009 06:03PM

Re: Using 3dDeconvolve "stim_times" without a response model with minlag and max

Gabe Castillo February 17, 2009 08:30PM

Re: Using 3dDeconvolve "stim_times" without a response model with minlag and max

Gabe Castillo February 19, 2009 09:03PM

Re: Using 3dDeconvolve "stim_times" without a response model with minlag and max

rick reynolds February 19, 2009 10:27PM

Re: Using 3dDeconvolve "stim_times" without a response model with minlag and max

Gabe Castillo February 20, 2009 02:34PM