Hey Mike,
The SegmentAAN.sh tool was first made available in FreeSurfer 8.0.0. I’d recommend installing the newest stable version of FS, or the nightly dev build, as there have been some updates to that tool since the 8.0.0 release.
Stable builds are available here: https://surfer.nmr.mgh.harvard.edu/fswiki/rel7downloads Development builds available here: https://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/dev/
Best, Jackson
From: David, Michael C B michael.david12@imperial.ac.uk Date: Thursday, May 7, 2026 at 9:17 AM To: freesurfer@nmr.mgh.harvard.edu freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] Segment AAN
External Email - Use Caution Hello,
I would be grateful for your help in trying to run segmentAAN. I’ve tried running segementAAN but cannot find the function in the freesurfer version installed which is 7.3.2 to be able to run it as the command on their website
SegmentAAN.shhttp://secure-web.cisco.com/1jyjVmYiR_9gjCSQh6QtCc1HU5rWJkKVLmgv493Ak6LyDdJkbJk5n1w_PT_gXl11kGg9MrDT2HsO7idb4MXvCzC7drznVxw5Ijrf1Va927n7ArU86G_gt094sH-WHmNZ5P-QJeXYIHG4j-yggDVHF3Qo8hxcryJbaT9ilHi9mO8U1bpkF0YsR2_SM1ulgUTmL-RZGXT9NUQlXaZYAn1Z24ScirOJv3EFKAWOeEa1yN0-HV4OTE3IVtTEii_RQE16HYFgVEhHn72vbfPc564pMxNsz-ZOhwdr6FN9_DEgWVaWBVLHgQs4mqvGylEN8A8toKjtz4Aaih1JR1jz8uo3_sg/http%3A%2F%2Fsegmentaan.sh%2F <SUBJECT_ID> <SUBJECT_DIR> Can you advise on if it should be currently available and how to go about finding it if so?
Many thanks,
Mike
Dr Michael David
Academic Clinical Fellow
UK Dementia Research Institute – Care Research & Technology
Imperial College London
Email | md2012@ic.ac.ukmailto:md2012@ic.ac.uk
Phone | 07914658195
Twitter | @michaelcbdavid
Address | Sir Michael Uren Hub, Imperial College, 86 Wood Lane, London W12 0BZ
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