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Dear AFNI users-
We are very pleased to announce that the new AFNI Message Board framework is up! Please join us at:
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
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 21, 2018 07:04PM | |
Registered: 9 years ago Posts: 4 |
Dear AFNI folks,
I'm trying to use 3dLME to get an estimate of voxelwise ICC. The design is as follows: a group of subjects were scanned about a week apart. I entered the contrast estimates for our task contrast of interest into 3dLME using the following command:
3dLME -prefix LME_Embarc_HC_ICC_iI-cI_80Acc4mmRMS_WB \
-model "1" \
-ranEff 'Subj+Time' \
-ICC \
-dataTable \
Subj Time InputFile \
CU0009 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/CU0009CUMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
CU0009 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/CU0009CUMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
CU0013 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/CU0013CUMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
CU0013 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/CU0013CUMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
CU0017 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/CU0017CUMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
CU0017 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/CU0017CUMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
CU0018 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/CU0018CUMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
CU0018 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/CU0018CUMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
CU0020 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/CU0020CUMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
CU0020 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/CU0020CUMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
CU0023 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/CU0023CUMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
CU0023 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/CU0023CUMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
CU0028 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/CU0028CUMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
CU0028 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/CU0028CUMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0006 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/MG0006MGMR1R2_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0006 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/MG0006MGMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0007 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/MG0007MGMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0007 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/MG0007MGMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0008 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/MG0008MGMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0008 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/MG0008MGMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0020 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/MG0020MGMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0020 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/MG0020MGMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0025 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/MG0025MGMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0025 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/MG0025MGMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0026 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/MG0026MGMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0026 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/MG0026MGMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0028 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/MG0028MGMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0028 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/MG0028MGMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0030 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/MG0030MGMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0030 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/MG0030MGMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0040 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/MG0040MGMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0040 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/MG0040MGMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0081 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/MG0081MGMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0081 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/MG0081MGMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0016 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/TX0016TXMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0016 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/TX0016TXMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0019 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/TX0019TXMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0019 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/TX0019TXMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0022 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/TX0022TXMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0022 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/TX0022TXMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0027 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/TX0027TXMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0027 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/TX0027TXMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0029 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/TX0029TXMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0029 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/TX0029TXMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0033 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/TX0033TXMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0033 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/TX0033TXMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0037 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/TX0037TXMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0037 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/TX0037TXMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0038 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/TX0038TXMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0038 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/TX0038TXMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0040 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/TX0040TXMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0040 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/TX0040TXMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0041 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/TX0041TXMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0041 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/TX0041TXMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0012 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/UM0012UMMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0012 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/UM0012UMMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0017 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/UM0017UMMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0017 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/UM0017UMMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0023 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/UM0023UMMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0023 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/UM0023UMMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0024 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/UM0024UMMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0024 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/UM0024UMMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0029 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/UM0029UMMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0029 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/UM0029UMMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0031 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/UM0031UMMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0031 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/UM0031UMMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0032 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/UM0032UMMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0032 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/UM0032UMMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0035 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/UM0035UMMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0035 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/UM0035UMMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0040 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/UM0040UMMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0040 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/UM0040UMMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz
The output from 3dLME, however, has 0 values for the ICC across most of the brain. See attached screenshot for reference.
I'm wondering whether I did something incorrectly with the command, or if the ICC is just so poor for most of the brain that the program is rounding the output to 0 across most voxels?
Any help would be much appreciated! Thanks for your time.
Best,
Greg
Greg Fonzo, Ph.D.
Assistant Professor of Psychiatry
Dell Medical School | The University of Texas at Austin
gfonzo@austin.utexas.edu
I'm trying to use 3dLME to get an estimate of voxelwise ICC. The design is as follows: a group of subjects were scanned about a week apart. I entered the contrast estimates for our task contrast of interest into 3dLME using the following command:
3dLME -prefix LME_Embarc_HC_ICC_iI-cI_80Acc4mmRMS_WB \
-model "1" \
-ranEff 'Subj+Time' \
-ICC \
-dataTable \
Subj Time InputFile \
CU0009 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/CU0009CUMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
CU0009 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/CU0009CUMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
CU0013 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/CU0013CUMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
CU0013 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/CU0013CUMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
CU0017 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/CU0017CUMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
CU0017 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/CU0017CUMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
CU0018 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/CU0018CUMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
CU0018 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/CU0018CUMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
CU0020 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/CU0020CUMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
CU0020 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/CU0020CUMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
CU0023 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/CU0023CUMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
CU0023 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/CU0023CUMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
CU0028 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/CU0028CUMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
CU0028 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/CU0028CUMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0006 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/MG0006MGMR1R2_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0006 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/MG0006MGMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0007 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/MG0007MGMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0007 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/MG0007MGMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0008 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/MG0008MGMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0008 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/MG0008MGMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0020 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/MG0020MGMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0020 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/MG0020MGMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0025 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/MG0025MGMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0025 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/MG0025MGMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0026 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/MG0026MGMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0026 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/MG0026MGMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0028 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/MG0028MGMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0028 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/MG0028MGMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0030 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/MG0030MGMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0030 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/MG0030MGMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0040 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/MG0040MGMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0040 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/MG0040MGMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0081 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/MG0081MGMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
MG0081 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/MG0081MGMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0016 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/TX0016TXMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0016 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/TX0016TXMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0019 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/TX0019TXMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0019 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/TX0019TXMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0022 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/TX0022TXMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0022 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/TX0022TXMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0027 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/TX0027TXMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0027 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/TX0027TXMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0029 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/TX0029TXMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0029 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/TX0029TXMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0033 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/TX0033TXMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0033 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/TX0033TXMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0037 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/TX0037TXMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0037 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/TX0037TXMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0038 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/TX0038TXMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0038 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/TX0038TXMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0040 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/TX0040TXMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0040 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/TX0040TXMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0041 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/TX0041TXMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
TX0041 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/TX0041TXMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0012 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/UM0012UMMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0012 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/UM0012UMMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0017 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/UM0017UMMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0017 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/UM0017UMMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0023 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/UM0023UMMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0023 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/UM0023UMMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0024 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/UM0024UMMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0024 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/UM0024UMMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0029 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/UM0029UMMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0029 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/UM0029UMMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0031 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/UM0031UMMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0031 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/UM0031UMMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0032 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/UM0032UMMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0032 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/UM0032UMMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0035 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/UM0035UMMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0035 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/UM0035UMMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0040 PreTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session1/all_con_0005_mni_fonz/emoconflict_with_motion/UM0040UMMR1R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz \
UM0040 PostTx /Volumes/Smurf-Village/Imaging/embarc/full_data/emoconflict/session2/all_con_0005_mni_fonz/emoconflict_with_motion/UM0040UMMR2R1_emoconflict_emoconflict_with_motion_con_0005_mni.nii.gz
The output from 3dLME, however, has 0 values for the ICC across most of the brain. See attached screenshot for reference.
I'm wondering whether I did something incorrectly with the command, or if the ICC is just so poor for most of the brain that the program is rounding the output to 0 across most voxels?
Any help would be much appreciated! Thanks for your time.
Best,
Greg
Greg Fonzo, Ph.D.
Assistant Professor of Psychiatry
Dell Medical School | The University of Texas at Austin
gfonzo@austin.utexas.edu
| Subject | Author | Posted |
|---|---|---|
|
Greg Fonzo | December 21, 2018 07:04PM |
|
gang | December 24, 2018 06:40AM |
|
Greg Fonzo | December 24, 2018 11:18AM |
