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  

Previous Message Next Message
Message List New Topic Print View
|
rick reynolds
August 24, 2014 08:40PM
Hi Josh,

If only 1 run had poor alignment, that means that 3dvolreg
failed to align across runs, which means there was probably
a very large subject movement between runs.

Try adding -twopass to the 3dvolreg command. And while
you are at it, consider extra zeropadding for that step. So
try adding this set of options to your afni_proc.py command: 

-volreg_opts_vr -twopass \
-volreg_zpad 4 \

- rick
Reply Quote
RSS
Subject Author Posted

poor alignment after align_epi_anat.py

jgowin August 22, 2014 02:26PM

Re: poor alignment after align_epi_anat.py

Peter Molfese August 22, 2014 03:42PM

Re: poor alignment after align_epi_anat.py

jgowin August 22, 2014 03:52PM

Re: poor alignment after align_epi_anat.py

rick reynolds August 24, 2014 08:40PM

Re: poor alignment after align_epi_anat.py

jgowin August 25, 2014 05:31PM

Re: poor alignment after align_epi_anat.py

rick reynolds August 25, 2014 08:47PM

Re: poor alignment after align_epi_anat.py

jgowin August 27, 2014 09:51AM

Re: poor alignment after align_epi_anat.py

rick reynolds August 27, 2014 02:53PM