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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octavian lie
December 31, 2020 04:30PM
Dear All,

A program that uses afni registers a ct scan ($ct) to T1 MRI ($t1) via 3 steps

1. @Align_Centers -base $t1 -dset $ct : creates matrix ct_shft.1D
2. 3dresample -input ct_shft.nii -prefix ct_res_shft.nii -master $t1 -dxyz 1 1 1 -rmode NN
3. align_epi_anat.py -dset1 $t1 -dset2 ct_res_shft.nii -dset1_strip None -dset2_strip None -dset2to1 -suffix _al -feature_size 1 -overwrite -cost nmi -giant_move -rigid_body > status.txt : creates matrix t1_al_mat.aff12.1D


I would like to create also a T1 copy registered to $ct (reverse transformation of t1 in ct space) using the two matrices generated by forward transform. How to I do this in afni?

Thank you very much and Happy New Year!!
Octavian
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Subject Author Posted

invert multiple step registration

octavian lie December 31, 2020 04:30PM

Re: invert multiple step registration

ptaylor January 02, 2021 03:44PM

Re: invert multiple step registration

octavian lie January 02, 2021 04:53PM

Re: invert multiple step registration

octavian lie January 03, 2021 01:28PM

Re: invert multiple step registration

ptaylor January 04, 2021 09:37AM

Re: invert multiple step registration

octavian lie January 04, 2021 03:39PM

Re: invert multiple step registration

ptaylor January 06, 2021 12:50PM

Re: invert multiple step registration

octavian lie January 06, 2021 03:00PM