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
March 26, 2015 04:43PM
Hi Ranjan-

This is definitely possible in AFNI. As Daniel mentioned, the easiest thing to do would be to set the -master_epi. So a command like this would perform the alignment between anatomical and functional datasets (including removing motion correction and doing slice timing adjustments) while also putting the two datasets on the same grid (here being the size of the anatomical data: 

align_epi_anat.py \
-anat anatFile+orig. \
-epi functionalFile+orig. \
-epi_base 0 \
-master_epi anatFile+orig. \
-epi2anat \
-big_move

You may need to play with having -big_move on or off or even try -giant_move depending on how far apart your two datasets start.



Edited 1 time(s). Last edit at 03/26/2015 04:57PM by Peter Molfese.
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Subject Author Posted

align functional data with anatomical data

maitra March 26, 2015 12:43AM

Re: align functional data with anatomical data

rick reynolds March 26, 2015 08:49AM

Re: align functional data with anatomical data

maitra March 26, 2015 04:20PM

Re: align functional data with anatomical data

Peter Molfese March 26, 2015 04:43PM

Re: align functional data with anatomical data

maitra March 26, 2015 05:24PM

Re: align functional data with anatomical data

Peter Molfese March 26, 2015 05:33PM

Re: align functional data with anatomical data

maitra March 26, 2015 06:03PM

Re: align functional data with anatomical data

Daniel Glen March 26, 2015 06:53PM

Re: align functional data with anatomical data

maitra March 26, 2015 07:16PM

Re: align functional data with anatomical data

Daniel Glen March 26, 2015 10:37PM

Re: align functional data with anatomical data

maitra March 27, 2015 12:58AM

Re: align functional data with anatomical data

Daniel Glen March 27, 2015 04:38AM

Re: align functional data with anatomical data

maitra March 27, 2015 09:18AM

Re: align functional data with anatomical data

Daniel Glen March 27, 2015 01:25PM

Re: align functional data with anatomical data

Daniel Glen March 26, 2015 01:58PM