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
|
Janani
February 05, 2008 08:31AM
Hello,

I have been trying to allineate the anatomical to the EPI. Originally, only my EPI datasets were oblique. I obliqued the anatomical and seem to have some alignment. 3dAllineating these oblique sets caused the anatomical to shift very little and doesn't seem as well aligned anymore. I am new to 3dAllineate. Can anyone suggest a proper syntax so I may know where in my code I am going wrong or why this may have happened? The syntax I used to 3dAllineate is as follows:

3dAllineate \
-base epi+orig \
-input anat+orig \
-mi \
-prefix anat_aln+orig \
-warp shift_only

Thank you!

Reply Quote
RSS
Subject Author Posted

3dAllineate - anatomical to EPI

Janani February 05, 2008 08:31AM

Re: 3dAllineate - anatomical to EPI

ziad February 05, 2008 10:06AM

Re: 3dAllineate - anatomical to EPI

Janani February 05, 2008 10:26AM

Re: 3dAllineate - anatomical to EPI

ziad February 05, 2008 03:45PM

Re: 3dAllineate - anatomical to EPI

Janani February 08, 2008 12:36PM