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Dear Chris and Douglas,

Thank you for the help! I would try the hires and precon_all. One more quesion, now I have a much better recon result from adult macaque brain. But when I performed MRI in 1 years old macaque. Recon-all barely can generate result, either with error or very bad segmentation. We are using TI 1100ms, TR3000/TE3.29 and FOV 128*128. Is there any way to segment young monkeys better? Thanks again.

bests, Minqing

Hi Minqing Jiang,

Getting a macaque brain through Freesurfer requires a bit of manual tinkering. We have a description of how we do it on GitHub: https://github.com/VisionandCognition/NHP-Freesurfer

There's also precon_all (https://github.com/recoveringyank/precon_all) which I haven't personally used yet, but I've seen results and it looks very promising!

?Good luck!

Chris