Dear HR, You can run the FS7 substructures on data reconned with 6.0. It's not ideal in the sense that the results are a bit harder to reproduce, but definitely doable (as long as you report it in the papers your write!). The results will indeed be slightly different than if you ran the whole thing with FS7, but not too different (the output from recon-all is used as initialization). I hope this helps! /Eugenio
Juan Eugenio Iglesias Senior research fellow CMIC (UCL), MGH (HMS) and CSAIL (MIT) http://www.jeiglesias.com
On 8/5/20, 00:43, "freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Haewon Roh" <freesurfer-bounces@nmr.mgh.harvard.edu on behalf of rofree1st@gmail.com> wrote:
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Hi.
I have a quetion about thalamic nuclei segmentation process in freesurfer v7. Now, I’ve got a large amounts of patients samples which were already pre-processed using “recon -all” pipeline in freesurfer version 6, but I want to know their specific volumes of thalamic nucleis or subsegmentations using freesufer 7.
So, due to a quite large number of samples, I feel that it will take a very long time to do preprocessing again in freesurfer 7 and , if possible, without re-pre-processing in freesurfer v7.0, I’d like to do additional subsegmentation of thalamus as well as hippoamygdala.
So I’ like to ask if these kinds of thalmic nuclei subsegmentaion or Hippo-amygdala subsegmentation which was newly-introduced in freesurfer 7.0, can be done using data which was pre-processed in freesurfer 6.0 already.
(Is it possible to do thalamic segmentaiton using segmentThalamic nuclei pipeline in freesurfer 7 for the data already pre-processed in freesufer 6.0 ? ) and I am also very curious if their results will be different from the results which was made using only freesurfer v7 from pre-precessing?
Best, H Roh.
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