Hi Bruce,

Where may I find more information about the differences in recon-all or subcortical segmentations (aseg) between 5.3 and 6.0?

Is the 6.0 pipeline still based on this paper?

Fischl, B., Salat, D. H., Busa, E., Albert, M., Dieterich, M., Haselgrove, C., … Dale, A. M. (2002). Whole brain segmentation: automated labeling of neuroanatomical structures in the human brain. Neuron, 33(3), 341–355.

If not, could you please shed some light on the improvements in 6.0?

Thanks a lot.

S --  Shane Schofield

On 27 February 2017 at 23:40:12, Bruce Fischl (fischl@nmr.mgh.harvard.edu) wrote:

Hi weiwei

if the aseg looks good you don't have to worry about how the subcortical  structures look in the brainmask - it's irrelevant. Not sure about the pial  surfaces - we find the surfaces in 6.0 more accurate than 5.3, but maybe  not for your specific sequence? It's hard to say

cheers  Bruce

On Mon, 27 Feb 2017, ?  ? wrote:

dear FS community:      now i have more than 200 subjects which already finished recon-all with 5.3,  since 6.0 released, i wonder should i re-run them with 6.0 as lots of changes like  different surf-map and registration. i ran a bit of them as test and i found the pial  problems were more than 5.3, and it seems some subcortical structures were vanished  in the brainmask.mgz, though the aseg.mgz looked good.      i wanna ask is my problem serious or it is usual with 6.0, and which version you  think is better for cortical volume and surface thickness reserch?  best regards    weiwei  west china hospital    _____________________________________________________________________________________   weiqi77777@live.com    _______________________________________________

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