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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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Hello!
I’m wondering if there is a way to align an EPI and a T1 dataset without skull stripping the T1.
We need to align EPI and T1 datasets to use for TMS localization, but for the TMS part, to perform the MRI to head registration, we need the T1 to have its skull. I tried a bunch of options with align_epi_anat.py but could not get as output a T1 aligned with its skull. I was wondering if p
by
Pascale
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AFNI Message Board
Hello,
I'm having this error too after upgrading to Catalina and also updating R, which won't let me run MVM and other commands requiring R packages. I cannot install these packages because I get an error (see below).
All was working prior o these updates...
Any idea how to fix this?
Thanks!!
Pascale
Here is the output of afni_system_check.py -check_all
pascaletremblay%
by
Pascale
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AFNI Message Board
Hello!
I'm trying to correct surface data for multiple comparisons and wondering if the -etac option of 3dttest++ is supposed to work on surface datasets?
I'm a bit reluctant to use the slow-surf_clustim.py program at this point because it does not have the new options of 3dsurfclust..... But not sure how else to proceed?
Would you recommend conducting group analyses in the volum
by
Pascale
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AFNI Message Board
Hi Gang,
I have two groups (young and older). Yes, this is how I interpreted this, a potential difference in the variance of the two groups.
Thanks!
Pascale
by
Pascale
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AFNI Message Board
Hello,
I conducted a group-level mixed effect ANOVA using 3dMVM in a recent paper and was asked by a reviewer if 3dMVM can account for heteroskedasticity ? I could not find an answer in the documentation.
Thanks for any info !
Pascale
by
Pascale
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AFNI Message Board
Hello!
I'm having some issues with MVM... I'm using MVM because of unequal N between groups.
MVM complains about my glt coding but it runs.
If I remove the glts, then there are no error messages anymore.
I don't know if I can trust the output?
I was not able to figure out what is wrong with the coding, perhaps someone has had a similar issue?
My AFNI version is up to date
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Pascale
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AFNI Message Board
Hi Daniel,
Thanks for your response.
Where is the green monochrome map in afni? Sorry, I've been looking but I can't seem to find it!
Pascale
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Pascale
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AFNI Message Board
Hello!
I have a rather basic question...
I am trying to use the green monochrome map to display activations in both the surface using SUMA and in the volume (basal ganglia) using the afni interface. However, none of the monochrome colour maps in SUMA is available in the afni interface, I was wondering if there is a way around that? That is, is is possible to have all the same monochrome col
by
Pascale
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AFNI Message Board
It worked!
I've been playing with different models and I'm now getting all the F that I need!
Thanks!
Pascale
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Pascale
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AFNI Message Board
Hello again,
So it went trough it and produced the desired output, thanks!
However, I noticed that the output does not include interactions with the continuous covariate (response duration) so I ran a few other versions of my script including new glt contratss and interactions but I never got it to finish. The p^rogram does not complain but it hangs after the data specification part right whe
by
Pascale
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AFNI Message Board
Hi Gang!
Thanks so much for the tip about my duration covariate and for the help with the code!
I changed to 3dLME and so far... its running!!
Pascale
by
Pascale
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AFNI Message Board
I tried but I still get the same mistake...
In fact when I remove the glt all together, I still get the same mistake so I though it was related to something in the table...
Any other idea?
Thanks a lot!
Pascale
by
Pascale
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AFNI Message Board
Hello!
I'm having an issue with 3dMVM:
The error is:
pascaletremblay% tcsh 7.MVM_Analysis.sh
Error in if (len%%wd != 0) errex.AFNI(paste("The content under -dataTable is not rectangular !", :
argument is of length zero
Calls: process.MVM.opts
Execution halted
Done!
I went through all similar posts and tried all the fixes and unfortunately none worked.
My afn
by
Pascale
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AFNI Message Board