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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September 16, 2022 04:42PM
Hi-

How about adding this option, to have lpa used as the cost function for the final rounds?
-cost_nl_final lpa

Note that the init_qc_01_nl0 is not the final nonlinear (NL) result, but the start of the main nonlinear part. That means that the first image there is showing that there will be a bit of ways to go. It is possible that the lpa cost, above, will help resolve the alignment at the later stages.

I woudl be curious to know how the anatS.*.nii volume looks? Sometimes the initial 3dSkullStrip result can be poor, causing later issues.

--pt
Subject Author Posted

skull stripping with SSwarper not looking perfect Attachments

Lysianne September 16, 2022 04:31PM

Re: skull stripping with SSwarper not looking perfect

ptaylor September 16, 2022 04:42PM

Re: skull stripping with SSwarper not looking perfect Attachments

Lysianne September 28, 2022 08:58AM

Re: skull stripping with SSwarper not looking perfect

ptaylor September 28, 2022 10:05AM

Re: skull stripping with SSwarper not looking perfect

Lysianne September 28, 2022 11:40AM

Re: skull stripping with SSwarper not looking perfect Attachments

Lysianne September 28, 2022 02:12PM

Re: skull stripping with SSwarper not looking perfect

ptaylor September 28, 2022 06:17PM

Re: skull stripping with SSwarper not looking perfect

Lysianne September 28, 2022 07:57PM

Re: skull stripping with SSwarper not looking perfect Attachments

storrisi October 06, 2022 01:21PM