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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
| December 20, 2022 03:19PM | |
Hi Gang,
I have similar questions. I ran 3dMVM with -resid flag on n=74. Here is my script.
Then I ran 3dFWHMx with -acf, and the residual from 3dMVM as an input.
3dFWHMx -acf -mask $mask -input GvsHC_resid.nii.gz -out acf_3dMVM2
Here is the output (444 lines)
10.6753 9.84336 9.79558
10.1204 9.35333 9.63601
10.6 10.5259 10.0315
.
.
.
11.3669 9.93517 10.3598
When I plugged these number in 3dClustsim. I got an error message "[-acf: 'a' value should be between 0 and 1
" b]
3dClustSim -mask $mask -acf mean_col1 mean_col2 mean_col3 -pthr 0.05 0.01 00.005 0.001 -iter 10000 >>ClustSim_3dMVMresid_${mask}_n74.txt
Could you please advise?
Thank you,
Nuttaon
I have similar questions. I ran 3dMVM with -resid flag on n=74. Here is my script.
3dMVM -prefix GvsHC.nii.gz \
-jobs 4 \
-bsVars "Group*CIRSGcenter+Education+Age+Gender" \
-wsVars "Valence*Magnitude" \
-qVars "Age,Education,CIRSGcenter" \
-qcenter 63.5, 16.6, 0 \
-resid GvsHC_resid.nii.gz \
-num_glt 18 \
-gltLabel 1 3Way_Group_by_ValenceandMagnitude -gltCode 1 "Group : 1*GRIEF -1*HC Valence : 1*Reward -1*Punishment Magnitude : 1*Lg -1*Small" \
-gltLabel 2 2Way_Group_Valence -gltCode 2 "Group : 1*GRIEF -1*HC Valence : 1*Reward -1*Punishment Magnitude : 1*All" \
-gltLabel 3 posthoc_Group_Reward -gltCode 3 "Group : 1*GRIEF -1*HC Valence : 1*Reward Magnitude : 1*All" \
-gltLabel 4 posthoc_Group_Punishment -gltCode 4 "Group : 1*GRIEF -1*HC Valence : 1*Punishment Magnitude : 1*All" \
-gltLabel 5 posthoc_Group_RewardMagnitude -gltCode 5 "Group : 1*GRIEF -1*HC Valence : 1*Reward Magnitude : 1*Lg -1*Small" \
-gltLabel 6 posthoc_Group_PunishmentMagnitude -gltCode 6 "Group : 1*GRIEF -1*HC Valence : 1*Punishment Magnitude : 1*Lg -1*Small" \
-gltLabel 7 posthoc_Grief_Reward -gltCode 7 "Group : 1*GRIEF Valence : 1*Reward Magnitude : 1*All" \
-gltLabel 8 posthoc_Grief_Punishment -gltCode 8 "Group : 1*GRIEF Valence : 1*Punishment Magnitude : 1*All" \
-gltLabel 9 posthoc_HC_Reward -gltCode 9 "Group : 1*HC Valence : 1*Reward Magnitude : 1*All" \
-gltLabel 10 posthoc_HC_Punishment -gltCode 10 "Group : 1*HC Valence : 1*Punishment Magnitude : 1*All" \
-gltLabel 11 posthoc_Grief_LgReward -gltCode 11 "Group : 1*GRIEF Valence : 1*Reward Magnitude : 1*Lg" \
-gltLabel 12 posthoc_Grief_LgPunishment -gltCode 12 "Group : 1*GRIEF Valence : 1*Punishment Magnitude : 1*Lg" \
-gltLabel 13 posthoc_HC_LgReward -gltCode 13 "Group : 1*HC Valence : 1*Reward Magnitude : 1*Lg" \
-gltLabel 14 posthoc_HC_LgPunishment -gltCode 14 "Group : 1*HC Valence : 1*Punishment Magnitude : 1*Lg" \
-gltLabel 15 posthoc_Grief_SmallReward -gltCode 15 "Group : 1*GRIEF Valence : 1*Reward Magnitude : 1*Small" \
-gltLabel 16 posthoc_Grief_SmallPunishment -gltCode 16 "Group : 1*GRIEF Valence : 1*Punishment Magnitude : 1*Small" \
-gltLabel 17 posthoc_HC_SmallReward -gltCode 17 "Group : 1*HC Valence : 1*Reward Magnitude : 1*Small" \
-gltLabel 18 posthoc_HC_SmallPunishment -gltCode 18 "Group : 1*HC Valence : 1*Punishment Magnitude : 1*Small" \
-dataTable \
Then I ran 3dFWHMx with -acf, and the residual from 3dMVM as an input.
3dFWHMx -acf -mask $mask -input GvsHC_resid.nii.gz -out acf_3dMVM2
Here is the output (444 lines)
10.6753 9.84336 9.79558
10.1204 9.35333 9.63601
10.6 10.5259 10.0315
.
.
.
11.3669 9.93517 10.3598
When I plugged these number in 3dClustsim. I got an error message "[-acf: 'a' value should be between 0 and 1
" b]
3dClustSim -mask $mask -acf mean_col1 mean_col2 mean_col3 -pthr 0.05 0.01 00.005 0.001 -iter 10000 >>ClustSim_3dMVMresid_${mask}_n74.txt
Could you please advise?
Thank you,
Nuttaon
| Subject | Author | Posted |
|---|---|---|
|
Matthew Hoptman | November 08, 2022 05:00PM |
|
gang | November 10, 2022 12:17PM |
|
Matthew Hoptman | November 10, 2022 01:55PM |
|
Matthew Hoptman | December 13, 2022 09:23AM |
|
gang | December 15, 2022 09:17AM |
|
nuttaon | December 20, 2022 03:19PM |
|
gang | December 21, 2022 08:43PM |
|
nuttaon | December 22, 2022 12:41PM |
|
nuttaon | December 22, 2022 03:51PM |
|
gang | December 23, 2022 01:37PM |
