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
November 18, 2019 12:21PM
The screenshot looks like you're showing the direct DICOM converted datasets. It's rare that I'd expect to see those in perfect alignment just due to the sheer number of ways of interpreting coordinates from a DICOM file. The image that you might want to look at are the pb03 or pb04 within the results folder which should include the align step. If you're still not seeing good alignment then you might consider adding these to your afni_proc.py command. 

-align_opts_aea -giant_move -cost lpc+ZZ
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Subject Author Posted

EPI and anat are not aligned after using dimon to convert dicom files to afni format

erobbins105 November 14, 2019 01:40PM

Re: EPI and anat are not aligned after using dimon to convert dicom files to afni format

Peter Molfese November 14, 2019 04:47PM

Re: EPI and anat are not aligned after using dimon to convert dicom files to afni format

erobbins105 November 14, 2019 06:53PM

Re: EPI and anat are not aligned after using dimon to convert dicom files to afni format Attachments

erobbins105 November 18, 2019 10:46AM

Re: EPI and anat are not aligned after using dimon to convert dicom files to afni format

Peter Molfese November 18, 2019 12:21PM

Re: EPI and anat are not aligned after using dimon to convert dicom files to afni format

erobbins105 November 19, 2019 02:04PM