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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Daniel Glen
September 09, 2016 05:25PM
The contrast in the EPI dataset doesn't have bright CSF relative to the tissue, and the default alignment relies on that. However, the alignment works well with lpa or nmi cost functions instead of the default for anat to epi alignment cost function of lpc or lpc+ZZ.

align_epi_anat.py -cost lpa -multi_cost nmi -anat anat_strip+orig. -dset2_strip None -epi rest_am+orig. -epi_base 0 -dset1_strip None -suffix _al2epi2 -deoblique off -overwrite
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Subject Author Posted

alignment

sharyn August 31, 2016 02:31PM

Re: alignment

Daniel Glen August 31, 2016 06:16PM

Re: alignment

sharyn September 02, 2016 12:27PM

Re: alignment

Daniel Glen September 02, 2016 04:32PM

Re: alignment

Daniel Glen September 09, 2016 05:25PM