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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Peter Molfese
August 07, 2013 10:52AM
Yang,

According to the help 3dNwarpApply allows for applying affine transforms (coming out of @auto_tlrc, align_epi_anat.py or 3dAllineate) with the nonlinear transforms of 3dQwarp. However, FSL's flirt uses a different coordinate system (LPI) than AFNI. So you could try modifying the flirt matrix to match the RAI system that AFNI uses, in which case this thread may be helpful.

I'm wondering why you want to use flirt to do the epi-anat transform instead of using align_epi_anat.py or another AFNI tool.

Peter



Edited 2 time(s). Last edit at 08/07/2013 11:24AM by Peter Molfese.
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Subject Author Posted

can dNwarpApply utilize affine transformation generated by flirt?

Anonymous User August 02, 2013 02:51PM

Re: can dNwarpApply utilize affine transformation generated by flirt?

Peter Molfese August 07, 2013 10:52AM