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

History of AFNI updates  

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November 20, 2013 06:11PM
Yeah, well I was confused about this too, but I think it is in fact surface data, despite the .mgh suffix. I base that mainly on the fact that I can open the .mgh file as an overlay in tksurfer, but not in tkmedit. I also tried Nick's method of converting to NIFTI using mri_convert, but was unable to produce a NIFTI file that AFNI could open. I did manage to produce a .1D file that I could view in SUMA, and that appears to be in registration with the surface, by using the following steps:

1) mris_convert -f ${a}.mgh rh.white ${b}.gii
2) gifti_tool -infile ${b}.gii -write_1D ${c}.1D

I am definitively not FreeSurfer wiz, and their approach to documentation appears slightly different from AFNIs, so I would appreciate some feedback on what I am doing here. But like I said, for now it produces a file that looks correct, when viewed in SUMA.

If anyone is interested, the data were from the anatomical retinotopy template, created by Benson and colleagues.

Best,

Peter
Subject Author Posted

Convert Freesurfer .mgh file to niml.dset

PeterKohler November 19, 2013 03:33PM

Re: Convert Freesurfer .mgh file to niml.dset

nick November 19, 2013 07:52PM

Re: Convert Freesurfer .mgh file to niml.dset

ziad November 20, 2013 01:41PM

Re: Convert Freesurfer .mgh file to niml.dset

PeterKohler November 20, 2013 06:11PM

Re: Convert Freesurfer .mgh file to niml.dset

ziad November 20, 2013 07:40PM

Re: Convert Freesurfer .mgh file to niml.dset

PeterKohler November 20, 2013 09:25PM

Re: Convert Freesurfer .mgh file to niml.dset

nick November 21, 2013 12:14AM

Re: Convert Freesurfer .mgh file to niml.dset

PeterKohler November 23, 2013 04:59PM