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What do you mean with "edited"? I have just segmented the thalamus after recon
all but I guess I should do everything again. I mean, it is fine, I was just
wondering if I needed to do it since the data didn't seem bugged to me from the
t-test results.
________________________________
Da: freesurfer-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@nmr.mgh.harvard.edu> per conto di Douglas N. Greve
<dgr...@mgh.harvard.edu>
Inviato: venerdì 8 ottobre 2021 21:34
A: freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>
Oggetto: Re: [Freesurfer] R: Freesurfer version
It will be the easiest. If you have not edited them, then it is just computer
time, right?
On 10/8/2021 2:38 PM, Annalisa Lella wrote:
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That's what I wanted to avoid: reprocess all the data. Am I forced to?
Il 8 ott 2021 19:52, Annalisa Lella
<annalisale...@hotmail.it><mailto:annalisale...@hotmail.it> ha scritto:
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Pre-processed with recon all
Il 8 ott 2021 19:50, "Douglas N. Greve"
<dgr...@mgh.harvard.edu><mailto:dgr...@mgh.harvard.edu> ha scritto:
What do you mean by "elaborated"?
On 10/8/2021 1:29 PM, Annalisa Lella wrote:
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I have elaborated all my data with recon all version 7.0. I am doubting whether
I should elaborate them again with 7.2 or I can simply run the normalisation
with 7.2 on the data preprocessed with 7.0, since you told me that the problem
with version 7.0 is with the normalisation process. I ran few t-test on the
volumes and the thickness between version 6, 7 and 7.2 and there are few
differences across all the versions. So actually it doesn't seem that the
results of recon all with version 7 are bugged.
Il 8 ott 2021 18:53, "Douglas N. Greve"
<dgr...@mgh.harvard.edu><mailto:dgr...@mgh.harvard.edu> ha scritto:
Sorry, I'm not sure what you are asking when you ask what you should do. Do
about what?
On 10/4/2021 5:30 AM, Annalisa Lella wrote:
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Dear Mr. Greve,
thanks so much for your reply! I have been running t-tests on cortical and
subcortical volumes FDR corrected on 50 subjects to compare versions 6, 7 and
7.2 but I didn't see so much differences. What should I do? Should I run again
recon all with version 7.2 on all the subjects? Or can I use version 7.2 for my
analysis on data pre-processed with version 7?
Thanks a lot in advance!
Annalisa
________________________________
Da:
freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>
<freesurfer-boun...@nmr.mgh.harvard.edu><mailto:freesurfer-boun...@nmr.mgh.harvard.edu>
per conto di Douglas N. Greve
<dgr...@mgh.harvard.edu><mailto:dgr...@mgh.harvard.edu>
Inviato: venerdì 1 ottobre 2021 17:18
A: freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu>
<freesurfer@nmr.mgh.harvard.edu><mailto:freesurfer@nmr.mgh.harvard.edu>
Oggetto: Re: [Freesurfer] Freesurfer version
The 7.0.0 release was recalled because the intensity normalization *sometimes*
did the wrong thing. It would not surprise me if you were not seeing any of
these effects, but I can't guarantee that it won't happen in your data. If it
was happening, you would see some big differences in the thickness, and maybe
the subcortical volume. If you have edited your data, you can run version 7.2
on edited 7.0 data and 7.2 will respect and incorporate your edits.
On 9/27/2021 6:37 AM, Annalisa Lella wrote:
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Hi,
I was wondering if you could help me or give me more information. I have
pre-processed my MRI data using FreeSurfer version 7.0, which has been
recalled. I used the same version for the thalamic segmentation. I have
elaborated my data one year ago. Do I have to pre-process all my data again? I
randomly segmented few subjects with versions 6.0 and 7.2 and I implemented a
visual quality check but it seems to me that the images segmented with version
7.0 are good. I runned also t-tests between the extracted cortical volumes of
the three versions and there are overall few differences across the versions.
Where could I see if my data are not good? Which are the effects of the bug in
version 7.0?
Thanks!
Annalisa
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