19 Apr
2012
19 Apr
'12
11:51 a.m.
Hi all,
I've been following an e-mail on this list-serve from Joshua Lee regarding poor hippocampal segmentations in Freesurfer 5.1. He mentions "using -use-mritotal in the recon-all command to overcome tal-check failures" to help fix the segmentation and make them more like "those produced by Freesurfer version 4.xx." In light of this information, would you recommend that all normal Freesurfer 5.1 users add this flag to the recon-all command to help with any segmentation errors? Also, at what stage(s) in the reconstruction process should the flag be included (ie. recon-all -autorecon1,2, or 3)?
Thanks,
Steve