AFNI Message Board

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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September 03, 2019 12:37PM
Thanks for your reply. We start by averaging all 38 subject ROI masks into one composite mask:
3dMean -prefix allsubjectsmask.nii ~/Dropbox/fnirsauditoryproject2/processdata/p2process/S1001/viewer/Subject/1001_fullmask.nii
~/Dropbox/fnirsauditoryproject2/processdata/p2process/S1003/viewer/Subject/1003_fullmask.nii
~/Dropbox/fnirsauditoryproject2/processdata/p2process/S1004/viewer/Subject/1004_fullmask.nii
~/Dropbox/fnirsauditoryproject2/processdata/p2process/S1005/viewer/Subject/1005_fullmask.nii
~/Dropbox/fnirsauditoryproject2/processdata/p2process/S1006/viewer/Subject/1006_fullmask.nii
etc.

Then we threshold that mask to only include voxels in which all participants contributed data:
3dcalc -a allsubjectsmask.nii -expr 'equals(a,1)' -prefix allsubjectsmaskthresholded.nii

We ran 3dclustsim on this thresholded ROI mask to estimate minimum voxel cluster size (3dClustSim -mask allsubjectsmaskthresholded.nii -pthr 0.05).
Subject Author Posted

fNIRS image reconstruction method using AFNI tools

defenderfer August 14, 2019 02:03PM

Re: fNIRS image reconstruction method using AFNI tools

discoraj August 16, 2019 10:49AM

Re: fNIRS image reconstruction method using AFNI tools

defenderfer August 19, 2019 10:30AM

Re: fNIRS image reconstruction method using AFNI tools

discoraj August 30, 2019 12:09PM

Re: fNIRS image reconstruction method using AFNI tools

defenderfer September 03, 2019 12:37PM