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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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Results 61 - 74 of 74
Hi guys,
Peter, that's a cool solution and it *almost* works. Using it, I can get the three viewer windows (axial, sagittal, and coronal) to stay put where I want them but the AFNI controller window still disappears.
I imagine this puts us either closer or much further away from a solution...
It's not like I'm left high and dry, either. If I switch off my two peripheral mo
by
paul.hamilton
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AFNI Message Board
Hi there,
I'm on a Mac running 10.11.1 and have three monitors. When I open the AFNI GUI, the windows move quickly to my leftmost monitor and disappear off the edge. They're still "open" and running because they show up when I gather open windows in Mission Control. The issue is that they won't stay up in active mode. When I just use one monitor--the one on my iMac--th
by
paul.hamilton
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AFNI Message Board
Hi Guruji,
We're playing with some options for noise correction of resting fMRI data using afni_proc.
The problem goes something like this:
Number of TRs: 145
TR = 2 seconds
We want to eliminate contributions to the signal with frequency greater than 1/6 = 0.167. Ultimately, we'll also probably want to get rid of frequencies lower than 1/100 but we'd like to do that w
by
paul.hamilton
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AFNI Message Board
Hi Gang,
Thanks for your response!
To answer your final question, yes, a 2D scatterplot would be nice with cytokine levels on the x-axis and corrected neural inflammation on the y-axis where "corrected" in this case means the residuals of the neural-inflammation variable after accounting for relations between the motion and VBM_Jacobian covariates. Wondering if you could specify a
by
paul.hamilton
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AFNI Message Board
Honorable AFNI gurus:
I'm currently wanting to look at relations between a single non-neural variable (blood cytokine levels) and a voxel-wise estimate of neural inflammation but I need to first account for effects of both a voxel-wise noise covariate (VBM Jacobians) and a single motion estimate. Currently I'm doing this by using 3dttest++ in "just -setA" mode where the neu
by
paul.hamilton
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AFNI Message Board
Hi Gang,
Sorry. That's embarrassing.
Thanks for the help, though!
Paul
by
paul.hamilton
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AFNI Message Board
Hi all (probably Gang, more specifically),
We're playing with 3dLME to look at main effects and interactions between a between subjects factor (two levels) and a within-subjects factor (two levels) while trying to soak up some noise with age as a covariate of no interest.
We're coding it as shown below and getting consistent model test failures with the warning: "Warning mess
by
paul.hamilton
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AFNI Message Board
Hi there,
We're currently needing to look at the effects of a certain variable of interest once potential contributions of a couple of other factors are accounted for, in the linear sense. One of these to-be-accounted-for factors varies by voxel. Given this, we're wondering if it would be possible to incorporate voxel-wise regressors into 3dRegAna. If there's another way to acco
by
paul.hamilton
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AFNI Message Board
Hi guys,
I think another and more generally useful way to approach this would be in the form of a feature request to tag onto 3dregana. Specifically, if we can do voxel-wise regressors in 3dregana, we can achieve all the same functionality I'm currently looking for in a context that is probably going to be more accessible to other AFNI users.
Request coming right up...
All best,
by
paul.hamilton
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AFNI Message Board
Hi guys,
Sorry for the tardy reply on this. Just getting back to my desk after some time away.
To be concrete, I present the following.
We're working with a DTI-based index that estimates the amount of extra-cellular free water (FW) at each voxel in each participant. Our primary interest is in comparing depressed and healthy control samples with respect to this index (which is thoug
by
paul.hamilton
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AFNI Message Board
Hi guys,
We have a stochastic problem at our scanner that goes, for example, as follows:
-We intend to get, say, 3 runs each of 128 acquisitions of EPI data and 128 acquisitions-worth of physio data. From time to time, however, we come up one acquisition short of a full 4D series (literally, not in the sense that I'm trying to call someone crazy by saying that they are "one acquis
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paul.hamilton
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AFNI Message Board
Super thanks, Peter! That change to the command makes great sense.
Paul
by
paul.hamilton
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AFNI Message Board
Hi there,
If, for reasons I won't bore you with, I need to apply the affine and non-linear warps performed on the structural data to a set of functional data by applying something like:
3dNwarpApply -nwarp anat.un.aff.qw_WARP.nii -source stats.MID+orig -master ~/storage/labs/phamilton/LIBR/MADINI/Imaging/Microbiomics/data/basevol/base.nii -affter anat.un.aff.Xat.1D
how should I twea
by
paul.hamilton
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AFNI Message Board
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Pages: 123