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
|
george he
August 25, 2003 05:58PM
I concatenated two runs each having 147 time points and I was doing true deconvolution with stim_nptr=3. I just figured that the registration wasn't quite satisfactory here. There is obvious difference between the run1 and run2 after
registration. Did I do something wrong for the registration?
Thanks.
george

I guess it's easier to copy the command history to give you more info.
Here is what I did:

3dvolreg -pref SIRP_r1_vr -base SIRP_r1+orig'[90]' SIRP_r1+orig
3dvolreg -pref SIRP_r2_vr -base SIRP_r1+orig'[90]' SIRP_r2+orig
3dTcat -prefix SIRPAll_vr SIRP_r1_vr+orig'[2..148]' SIRP_r2_vr+orig'[2..148]'

3dTshift -prefix SIRPAll_vrTshift SIRPAll_vr+orig

waver -dt 1 -GAM -numout 882 -inline 72@0 37@1 124@0 36@1 172@0 \
187@0 36@1 126@0 36@1 56@0 > SIRP_arrow_1sec_hrf.1D
waver -dt 1 -GAM -numout 882 -inline 186@0 37@1 63@0 36@1 119@0 \
85@0 37@1 117@0 37@1 165@0 > SIRP_prob1_1sec_hrf.1D
waver -dt 1 -GAM -numout 882 -inline 26@0 37@1 280@0 37@1 61@0 \
144@0 37@1 223@0 37@1 > SIRP_prob3_1sec_hrf.1D
waver -dt 1 -GAM -numout 882 -inline 137@0 36@1 232@0 36@1 \
32@0 37@1 235@0 37@1 100@0 > SIRP_prob5_1sec_hrf.1D
waver -dt 1 -GAM -numout 882 -inline 1@0 12@1 50@0 6@1 40@0 8@1 57@0 3@1 46@0 \
6@1 40@0 8@1 45@0 6@1 52@0 4@1 57@0 \
1@0 12@1 56@0 6@1 47@0 8@1 51@0 4@1 38@0 \
6@1 47@0 8@1 57@0 6@1 38@0 4@1 52@0 > SIRP_cross_1sec_hrf.1D
waver -dt 1 -GAM -numout 882 -inline 16@0 8@1 97@0 13@1 47@0 3@1 76@0 3@1 50@0 \
8@1 47@0 14@1 39@0 \
16@0 14@1 49@0 3@1 52@0 8@1 92@0 3@1 50@0 \
15@1 92@0 8@1 39@0 > SIRP_encod_1sec_hrf.1D
echo 0 > SIRPconcat.1D
echo 147 >> SIRPconcat.1D

3dAutomask -prefix SIRPAll_vrTshift_mask SIRPAll_vrTshift+orig

3dDeconvolve -input SIRPAll_vrTshift+orig -xout -nfirst 0 -nlast 293 \
-concat SIRPconcat.1D -mask SIRPAll_vrTshift_mask+orig -num_stimts 6 \
-stim_file 1 SIRP_arrow_1sec_hrf.1D -stim_label 1 arrow -stim_maxlag 1 3 -stim_nptr 1 3 \
-stim_file 2 SIRP_prob1_1sec_hrf.1D -stim_label 2 prob1 -stim_maxlag 2 3 -stim_nptr 2 3 \
-stim_file 3 SIRP_prob3_1sec_hrf.1D -stim_label 3 prob3 -stim_maxlag 3 3 -stim_nptr 3 3 \
-stim_file 4 SIRP_prob5_1sec_hrf.1D -stim_label 4 prob5 -stim_maxlag 4 3 -stim_nptr 4 3 \
-stim_file 5 SIRP_cross_1sec_hrf.1D -stim_label 5 cross -stim_maxlag 5 3 -stim_nptr 5 3 \
-stim_file 6 SIRP_encod_1sec_hrf.1D -stim_label 6 encod -stim_maxlag 6 3 -stim_nptr 6 3 \
-full_first -fout -tout -rout -fitts SIRPAll_vrTshift_3ddeconv_fitts -bucket SIRPAll_vrTshift_3ddeconv
Reply Quote
RSS
Subject Author Posted

AFNI analysis of SIRP scan

George He August 20, 2003 10:14AM

Re: AFNI analysis of SIRP scan

bob cox August 23, 2003 12:52PM

Re: AFNI analysis of SIRP scan

george he August 25, 2003 05:58PM

Re: AFNI analysis of SIRP scan

Sally Durgerian September 04, 2003 01:38PM