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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:
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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Hi Gang,
Happy New Year! Hope you had a restful break!
Thank you so much for your help thus far! I was wondering if there was an advantage (or perhaps a disadvantage) of using one model with all the interactions included (as your suggested model below):
-model 'Age+DaysDrk+Task*Sex*Time*percHDD+Task*Sex*Time*CravP+Task*Sex*Time*BC'
vs. running three separate 3dlmes with e
by
mradoman
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AFNI Message Board
Thank you so much for your help!
I ran the model you recommended and had no error messages. I did want to check in about two things:
1. Centering: the CravP variable I pre-centered (within cluster) and under qVarCenters for this variable I listed 0, but the percHDD variable I entered as is and then centered it by including the mean under QVarCenters. That means when I multiplied the HDD an
by
mradoman
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AFNI Message Board
if I just include this line of code in a model TaskxTimexSexxCravP:
-gltLabel 1 'Male_stress_CravP' -gltCode 1 'Gender : 1*Male Task : 1*stress CravP : ' \
my understanding is that this contrast will show me regions of significant activation during stressful condition that predict craving in males. Of note here, the craving variable varies within cluster (so we have diff
by
mradoman
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AFNI Message Board
Hi everyone!
I'm looking to set up a 3lme with two covariates of interest that are continuous variables. Below is my model and the error message that I'm getting. Any ideas what I could be doing wrong? The script runs fine if I only use one covariate of interest under my gltcode. Thanks!!
3dLME -prefix LME_TaskxSexxRunxPercHDDxCravProv_covaryAgeDaysLastDrink.nii.gz -jobs 30
by
mradoman
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AFNI Message Board
p.s. Also happy to email the two files directly if that would be helpful.
by
mradoman
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AFNI Message Board
I ran the commands you recommended on a sample file:
3dinfo -obliquity Common_tb5388_stress_bis_AvgMiddle2RunsREML_sm6_orig_mask_RAS.nii.gz
Output: 0.00
nifti_tool -disp_hdr -infiles Common_tb5388_stress_bis_AvgMiddle2RunsREML_sm6_orig_mask_RAS.nii.gz
Output: please see the attached image for the full output.
I've also ran the nifti_tool command on the output from the 3dlme an
by
mradoman
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AFNI Message Board
Hi everyone,
My first level data has been co-registered to the standard MNI space (MNI_T1_2mm) and loads fine in MRIcroGL and FSLeyes. However, after running the 3dlme command, my result file no longer aligns well with the MNI space. Could you please help me understand what I might be doing wrong? I'm attaching the images to illustrate the problem.
Thank you in advance,
Milena
by
mradoman
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AFNI Message Board