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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March 04, 2014 12:27PM
Dear AFNI experts,

I used align_epi_anat.py to align a T1 to a b0 image. Now I get 2 mat files - T1_al_mat_aff12.1D and T1_al_e2a_only_mat.aff12.1D.

My first question is, is the second one the inverse matrix?

I tried to find this out by supplying it to 3dallineate and aligning the b0 to the T1(inverse of what was done before). However the result is confusing because of obliquity.

So my second question is, how do you deal with obliquity when applying an inverse matrix obtained from align_epi_anat?

Thank you!
Subject Author Posted

align_epi_anat: obliquity in applying inverse

_durai_ March 04, 2014 12:27PM

Re: align_epi_anat: obliquity in applying inverse

_durai_ March 04, 2014 01:05PM

Re: align_epi_anat: obliquity in applying inverse

Daniel Glen March 04, 2014 04:23PM

Re: align_epi_anat: obliquity in applying inverse

_durai_ March 05, 2014 08:47PM