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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July 26, 2016 08:45PM
My SUMA images show incorrectly placed functional data.

These are the steps I’ve been using to create the FreeSurfer volume and display it with SUMA.

Convert dicom to mgz:
mri_convert SerieMR-0012-0001-1.dcm 001.mgz
mv 001.mgz two_frames.mgz
mri_convert -nth 0 two_frames.mgz 001.mg

Create Freesurfer surfaces:
recon-all -all -subjid subject_name

Make SUMA SPEC:
@SUMA_Make_Spec_FS -sid your_subject_name

Fix alignment(this didn't change anything for me):
@SUMA_AlignToExperiment -wd -exp_anat subject_name+tlrc.HEAD -surf_anat subject_name_SurfVol+orig.HEAD

Display SUMA surface:
suma -spec s1_lh.spec -sv data+tlrc.HEAD

I also tried using the Talairach brain template. Again, the result I get does not correctly place a cluster visible in AFNI.

Thanks,
Vicki
Subject Author Posted

Misalignment SUMA

vicki388 July 26, 2016 08:45PM

Re: Misalignment SUMA

rick reynolds July 27, 2016 01:12PM

Re: Misalignment SUMA

vicki388 August 03, 2016 07:30PM

Re: Misalignment SUMA

vicki388 August 14, 2016 12:50AM

Re: Misalignment SUMA

shanaadise December 08, 2016 01:59PM

Re: Misalignment SUMA

Peter Molfese December 08, 2016 02:30PM

Re: Misalignment SUMA

shanaadise December 08, 2016 04:03PM

Re: Misalignment SUMA

shanaadise December 08, 2016 06:31PM

Re: Misalignment SUMA

Peter Molfese December 09, 2016 09:02AM