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
December 20, 2021 04:12PM
The EPI datasets are not required to be aligned to an anatomical dataset although alignment is usually carried out too in a typical processing pipeline. afni_proc..py has options for handling blip-up/down dataset by using -blip_forward_dset and -blip_reverse_dset. The -blip_forward_dset is optional. The initial part of the EPI time series will be used instead if the forward dataset is not supplied. Besides afni_proc.py, you can use just the unWarpEPI.py program for unwarping outside of our standard pipelines. It calls 3dQwarp and 3dNwarpApply appropriately.
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Subject Author Posted

3dQwarp -plusminus to correct EPI with inverted PE images

Marina Fernandez Alvarez December 17, 2021 10:15AM

Re: 3dQwarp -plusminus to correct EPI with inverted PE images

Daniel Glen December 20, 2021 04:12PM

Re: 3dQwarp -plusminus to correct EPI with inverted PE images

Marina Fernandez Alvarez December 22, 2021 05:20AM

Re: 3dQwarp -plusminus to correct EPI with inverted PE images

Daniel Glen December 22, 2021 01:44PM

Re: 3dQwarp -plusminus to correct EPI with inverted PE images

rick reynolds December 22, 2021 06:06PM