1) what partial volume correction do you mean?
2) I'll leave this for Eugenio and Koen.
Bruce
On Tue, 15 Dec 2015, Matthieu
Vanhoutte wrote:
Hi Bruce,
All right then it's only a question of time ofr the new v6 release !
Meanwhile, is it possible and coherent :
1) to use the partial volume correction provided in the v6 beta version of
FreeSurfer despite the fact that recon-all have been
done for all subjects with the v5.3 ?
2) to use sub-segmentations of brainstem and hippocampus provided by v6 beta
version of FreeSurfer despite the fact that
recon-all have been done for all subjects with the v5.3 ?
Thanks !
Best regards,
Matthieu
2015-12-15 18:22 GMT+01:00 Bruce Fischl <[email protected]>:
Hi Matthiew
we are still hoping to get an official v6 release out in the next month
or two, so it would be best to use that
which I think will outperform whatever beta you have and 5.3. If you
can't wait you are probably better off using
5.3 (although I think the v6 you have is more accurate) so that people
can at least replicate the software version
you are using
cheers
Bruce
On Tue, 15 Dec 2015, Matthieu Vanhoutte wrote:
Hi Bruce,
Is it better to overestimate than underestimate ? Please find
joined this two saggital images (FS v5.3
and FS v6_beta) of brain
segmentation. Cerebellum in v6_beta really seems to go outside of
its borderlines even if cerebellum in
v5.3 is indeed lightly
underestimated.
Looking at the cerebral cortex I found the segmentation less
"smoothed" in v6_beta (with more
irregularities near pial surface)
than in v5.3 according to coronal views of segmentations joined.
What do you think about it ? Would you advise me to go on with the
v6_beta anyway ?
Would it be better and coherent to use a more recent "nightly dev
builds" of FreeSurfer for future
publication ?
Thanks in advance for helping !
Best regards,
Matthieu
2015-12-15 17:38 GMT+01:00 Bruce Fischl
<[email protected]>:
Hi Matthieu
I think 6.0 looks better overall, even in the beta that you
have. The 5.3
segmentation looks like it is underestimating cerebellum and
hippocampus to
me.
cheers
Bruce
On Tue, 15 Dec 2015, Matthieu Vanhoutte wrote:
> Dear FS's experts,
>
> I have tried the recon-all process on one subject with both
FS v5.3 and v6_beta.
>
> Although subcortical structures seems to be better
segmented in v6_beta, I find that v6_beta
over-segmented some
other
> structures as cerebellum, hippocampus, ...
>
> I will attached in the FileDrop my T1.mgz, and
aparc.a2009s+aseg.mgz files for both freesurfer
versions.
>
> Could you please look at it and tell me what do you think
about and advise me ?
>
> Thank you !
>
> Best regards,
> Matthieu
>
>
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