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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Matthew Hoptman
June 15, 2022 01:08PM
Hi all,
I am planning to use FATCAT and am preprocessing the data using fMRIPrep. The fMRIPrep by default uses the MNI152NLin2009cAsym template. Is this the same as the mni_icbm152_t1_tal_nlin_asym_09c.nii template that one can obtain online from the McDonnell BIC? I believe the 2009a version is the one that is modified in the fatcat_proc_mni_ref zip file, but I want to use the 2009c version to match with fMRIPrep.

If so, what steps do I need to do to convert it to something like mni_icbm152_t2_relx_tal_nlin_sym_09c_ACPCE.nii.gz? The two main differences seem to be that it is manually AC-PC aligned and regridded to have an even number of slices in all FOV planes. I guess the even numbers has to do with how AFNI finds the center of images? I'd like to have the wtell file, as well, but I don't how to do that either. Any suggestions would be useful.
Thanks,
Matt
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Subject Author Posted

Using MNI152NLin2009cAsym template in FATCAT?

Matthew Hoptman June 15, 2022 01:08PM

Re: Using MNI152NLin2009cAsym template in FATCAT?

ptaylor June 15, 2022 02:38PM

Re: Using MNI152NLin2009cAsym template in FATCAT?

Matthew Hoptman June 15, 2022 02:51PM

Re: Using MNI152NLin2009cAsym template in FATCAT?

ptaylor June 15, 2022 03:44PM

Re: Using MNI152NLin2009cAsym template in FATCAT?

Matthew Hoptman June 15, 2022 03:27PM

Re: Using MNI152NLin2009cAsym template in FATCAT?

ptaylor June 15, 2022 03:45PM

Re: Using MNI152NLin2009cAsym template in FATCAT?

Matthew Hoptman June 15, 2022 03:27PM

Re: Using MNI152NLin2009cAsym template in FATCAT?

ptaylor June 15, 2022 03:48PM

Re: Using MNI152NLin2009cAsym template in FATCAT?

Matthew Hoptman June 15, 2022 04:30PM