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

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gbattist
February 15, 2018 09:56PM
Dear AFNI experts,

I would like to register some ROIs in the MNI space to the T1-space of one participant.

I used auto_warp.py to to extract the transformation T1-2-MNI space and then use 3dNwarpApply to apply the inverse transformation to my ROIs. While the direct transformation looks fine (t1 to MNI), when I apply the inverse transformation my ROIs are not correctly registered. Could you please give me some advice on that?

these are the commands:

auto_warp.py -base MNI152_T1_2mm_brain.nii.gz -input PT4_T1_3D_AX_brain.nii -qblur 1 3 -unifize_input yes -save_script script -skull_strip_base no -skull_strip_input no

3dNwarpApply -master anat.nii -source LEFT_IFG44.nii -iwarp -nwarp 'anat.un.aff.qw_WARP.nii anat.un.aff.Xat.1D' -interp NN -prefix test_roi_left_IFG.nii

thanks

giovanni
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Subject Author Posted

3dNwarpApply

gbattist February 15, 2018 09:56PM

Re: 3dNwarpApply

RWCox February 17, 2018 02:57PM

Re: 3dNwarpApply

gbattist February 21, 2018 07:00PM

Re: 3dNwarpApply

Bob Cox February 22, 2018 02:34PM

Re: 3dNwarpApply

Bob Cox February 23, 2018 09:35AM