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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, I have two questions about using -ClustSim within 3dttest++:
1) I'm using 3dMEMA for the actual group statistics. For cluster size thresholds, I'm used to using 3dClustSim with -acf, but recently a colleague was told that it's fine to use the clustsim output from 3dttest++ with a MEMA analysis. As this method is newer and the 3dClustSim help file says it's the most accu
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d.r.alkire
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AFNI Message Board
When trying that, I get a different error (see attached). I got the same error when trying
-model 'cToM_Negative_A+(1|Subj)'
I also tried
-model 'cToM_Negative_A+(0+relationship|Subj)'
and got the "model test failed" like before. Finally, at my colleague's (Dustin Moraczewski) suggestion, I tried removing all doubles in Subj and running
-model &
by
d.r.alkire
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AFNI Message Board
Unfortunately it did not work. Below is the first part of my code in case there's something I missed, and attached is a screenshot of where the process gets hung every time I've run it. Below that is the "model test failed" message.
3dLMEr -prefix test_LME_cToMneg -jobs 24 \
-model 'cToM_Negative_A+(1|Subj)+(0+relationship|Subj)' \
-qVars 'cToM_Negative_A
by
d.r.alkire
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AFNI Message Board
Small update: I just tried again without the Subj column in the data table, and this time it didn't give me the previous error about content not being rectangular, but the model test still failed.
by
d.r.alkire
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AFNI Message Board
Hi Gang,
Thanks for your help last year. I'm finally at the point of running this analysis, and I've run into problems. I tried to follow your suggestion above about how to set up the model statement and data table, but the model test failed. I have the necessary R packages, and I believe the data table is set up correctly, as it is able to read the input files (see below; note I add
by
d.r.alkire
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AFNI Message Board
I'd like to do a group analysis where the covariate of interest is a behavioral measure collected outside the scanner from a task in which two participants were paired (matched on age and gender). For some dyads, both members will be part of the fMRI analysis, whereas for others only one member has fMRI data. The effect of interest is individual (i.e., does this behavioral measure relate to
by
d.r.alkire
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AFNI Message Board
3dMEMA \
-prefix ASDvTD_${N}_Age+meanFD_P-C_G \
-cio -max_zeros 2 -missing_data 0 \
-model_outliers -jobs $job -verb 1 \
-groups ASD TD \
-set ASD \
RED_CAT_201 RED_CAT_201_stats_dm_REML+tlrc'' RED_CAT_201_stats_dm_REML+tlrc''\
RED_CAT_204 RED_CAT_204_stats_dm_REML+tlrc'' RED_CAT_204_stats_dm_REML+tlrc
by
d.r.alkire
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AFNI Message Board
Hello,
I'm trying to run a between-group analysis with two groups and two continuous covariates. I'd like to use the same center for the covariates but different slopes, but when I specify this (-covariates_model center=same slope=different) I get this error:
Error in lop$covData * lop$xMat[, 2, drop = F] : non-conformable arrays
Calls: process.MEMA.opts -> cbind
The progra
by
d.r.alkire
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AFNI Message Board
I'm doing a one-sample 3dMEMA analysis with two covariates (contained in a text file with the recommended format). Could you please clarify the following from the help file, under the -covariates_center option:
QuoteIf you want all covariates centered about their own mean, just use -covariates_center mean. Be alert: Default is mean centering!
So if the -covariates_center option is not c
by
d.r.alkire
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AFNI Message Board