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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
History of AFNI updates
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Hi Gang,
I'm very interested in modeling trial as a random factor. Do I understand correctly from the bioRxiv paper that the implementation would be to use 3dREMLfit with one regressor for each trial, and then use 3dLMEr with each trial as an input file for one massive model? As in (following your example):
3dLMEr -prefix LME \
...
Subj Emotion Trial InputFile \
s1 pos T1 s1_decon+t
by
nmuncy
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AFNI Message Board
Hello,
I have a resting state data set that was collected with a 32-channel coil using multi-band acceleration factor 4. The data seem excessively noisy; the output of @ss_review_basic shows that many participants have up to 90 percent of their volumes being excluded due to "motion" (most are around 50%), but visual inspection of the data does not confirm this for most participants.
by
nmuncy
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AFNI Message Board
Ah, thank you.
That resolved my problem, I misunderstood the documentation of 3dMVM, example 2.
And I found the AFNI Section 7.1 on centering covariates, so I'm sure I can figure the rest out.
Thanks again.
-n
by
nmuncy
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AFNI Message Board
I have a dataset where there are two groups (Control, Autism) who were exposed to four stimuli during scanning (Mask, FBO, UBO, CA). For each participant we also have quantitative measurements from two tests (Snif, SPA) that we would like to use as covariates in the group-level analysis.
This is actually for a PPI analysis where we want to look at group differences in the correlation matrix w
by
nmuncy
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AFNI Message Board
Hi AFNI gurus,
I cannot get 3dMVM running using two covariates - I am sure I am doing something wrong. I think the problem stems from attempting to use two covariates in the gltCode - can such a thing be done? I've tried both glt and glfCode. I realize that my gltCode tests are t-tests which could be done with 3dttest++, but I have many such tests to run and was trying to not conduct too
by
nmuncy
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AFNI Message Board
Rick,
Thank you for the response, I really appreciate your input.
by
nmuncy
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AFNI Message Board
Hi,
Two quick questions:
1) I'm following afni_proc.py referencing example 11 to process resting state data. I plan on doing group-level analyses with ETAC - I know that ETAC should do my blurring for me at various levels, so should I still blur the RS data as part of the pre-processing?
2) For task-based pipelines, I'd like to extract mean beta coefficients following ETAC outp
by
nmuncy
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AFNI Message Board
Hi AFNI gurus,
I have been working to implement the new ETAC method in our lab, and have the output of 3dMultiThresh for each blur used. Is there a way that I can combine the various blurs now, in order to get a single significance map for my desired contrast? I apologize if I have overlooked something.
by
nmuncy
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AFNI Message Board