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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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afni -ver
Precompiled binary linux_openmp_64: Aug 23 2016 (Version AFNI_16.2.12)
afni_system_check.py -check_all
-------------------------------- general ---------------------------------
architecture: 64bit ELF
system: Linux
release: 2.6.32-504.16.2.el6.x86_64
version: #1 SMP Tue Mar 10 17:01:00 EDT 2015
distribution: Red Hat En
by
kwarren
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AFNI Message Board
I'm using align_epi_anat.py to align a subject's anatomical to their resting state epi (for later TMS targeting) but it keeps failing at the skull strip step. Both are deobliqued, and the epi has also been slice time corrected, despiked, and bandpassed.
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align_epi_anat.py -anat2epi -anat deobl.MPRAGE+orig -save_orig_skullstrip _strip -suffix _al_junk -epi bp+orig -epi_base 2 -v
by
kwarren
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AFNI Message Board
The preprocessing parameters are nothing unusual-- FD 0.5, despike, FWHM 4mm, bandpass filtering 0.01 and 0.1. And the individual subject maps are distinct from each other. Each has a different instacorr map using the same seed, and unlike in the group results changing the seed changes the r map. So there should be enough variation in each time series to show a good group map.
by
kwarren
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AFNI Message Board
It's the same across any voxel, regardless of distance from the seed. And the map results are exactly the same regardless of where the seed is
by
kwarren
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AFNI Message Board
I've been having trouble with 3dgroupincorr results. The mean levels of connectivity are in the range of 3-4, very far off from the expected -0.99 to 0.99. All the individual scans have normal instacorr connectivity maps, so it's not a problem with any scans. Any help clarifying would be appreciated!
The setup input, from cat of the niml file:
<3dGroupInCorr
nvec="90262
by
kwarren
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AFNI Message Board