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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tamtam
August 29, 2018 10:16AM
Hello,

I ran @SSwarper on the two subjects with poor skull stripping.. I ran the following code and the program seemed to run successfully:
@SSwarper \
11916.anat+orig \
MNI152_2009_template_SSW.nii.gz \
11916

I was reading online that the two JPEG files should be inspected to ensure that the skull-stripping and non-linear warping worked. For these, do I just ensure (1) there is no skull remaining (2) no brain regions are removed due to aggressive skull stripping (3) the yellow line follows the outer edges of the brain. Is there anything else I should keep an eye out for or any flags I should watch for? I just want to ensure I am checking these accurately. I have attached one of my outputs.

Thank you in advance for your help,
Tamara
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Attachments:
open | download - ss_3.png (408.5 KB)
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Subject Author Posted

Skull Stripping Attachments

tamtam August 24, 2018 03:07PM

Re: Skull Stripping

ptaylor August 24, 2018 04:26PM

Re: Skull Stripping

tamtam August 27, 2018 01:37PM

Re: Skull Stripping

ptaylor August 27, 2018 01:53PM

Re: Skull Stripping

tamtam August 27, 2018 02:35PM

Re: Skull Stripping

ptaylor August 27, 2018 03:22PM

Re: Skull Stripping

tamtam August 27, 2018 03:37PM

Re: Skull Stripping Attachments

tamtam August 29, 2018 10:16AM

Re: Skull Stripping

ptaylor August 29, 2018 10:38AM

Re: Skull Stripping

tamtam August 29, 2018 11:46AM