External Email - Use Caution
Not exactly. I can successfully create a nifti mask with this exvivo label, and the brain area it highlighted is correct from observation. But when I try to employ this mask to ROI analysis. The results I got are exactly the same, with and without this mask.
That is why I said it seems not working.
If exvivo label is the same label as I used before, I will further look into the script and parameter setups.
Thank you for all your help
PL
On Thu, 25 Jun 2020 at 19:20, Tim Schäfer ts+ml@rcmd.org wrote:
External Email - Use CautionWhat do you mean with 'not working'? Is an incorrect area highlighted on the brain? Does some command you are using respond with an error message?
Tim
On June 25, 2020 at 5:33 PM Peng Liu claudialiu1120@gmail.com wrote:
External Email - Use CautionI usually convert BA3b.label to a nifti mask with SPM to perform ROI analysis. But with exvivo label, the mask seems not working.
Many Thanks
PL
On Thu, 25 Jun 2020 at 16:24, Fischl, Bruce BFISCHL@mgh.harvard.edu
wrote:
Can you elaborate? What do you mean it is not working as it should be?
*From:* freesurfer-bounces@nmr.mgh.harvard.edu < freesurfer-bounces@nmr.mgh.harvard.edu> *On Behalf Of *Peng Liu *Sent:* Thursday, June 25, 2020 7:23 AM *To:* Freesurfer support list freesurfer@nmr.mgh.harvard.edu *Subject:* Re: [Freesurfer] Brodmann area labels
External Email - Use Caution *Hi Bruce,
I have tried this label, but it seems not working as it should be.
That is
why I wanted to create labels like before.
Thank you so much!
PL
On Wed, 24 Jun 2020 at 16:58, Fischl, Bruce BFISCHL@mgh.harvard.edu wrote:
Hi Peng
I think 'lh.BA3b*_exvivo*.label' is the label you want. The _exvivo
just
means that the data that went into the prediction was acquired on ex
vivo
brains.
Cheers
Bruce
*From:* freesurfer-bounces@nmr.mgh.harvard.edu < freesurfer-bounces@nmr.mgh.harvard.edu> *On Behalf Of *Peng Liu *Sent:* Wednesday, June 24, 2020 7:38 AM *To:* Freesurfer support list freesurfer@nmr.mgh.harvard.edu *Subject:* [Freesurfer] Brodmann area labels
External Email - Use Caution *Dear Freesurfer experts,
I was trying to perform some ROI analysis with results obtained from recon-all. However I noticed that after recon-all, the labels created
were
like 'lh.BA3b*_exvivo*.label', whereas the labels I would want to
create
are like 'lh.BA3b.label'.
I have tried mri_annotation2label command, but the results I got were
not
as wanted either.
Does anyone know how to create labels like 'lh.BA3b.label'?
Any help would be appreciated a lot!
Many Thanks
PL
[image: Otto-von-Guericke University Magdeburg]
Peng Liu, PhD Candidate
Institut für Kognitive Neurologie und Demenzforschung (IKND)
Otto-von-Guericke Universität Magdeburg
Deutsches Zentrum für Neurodegenerative Erkrankungen e.V. (DZNE)
Leipziger Str. 44| Haus 64| Raum 217
39120 Magdeburg, Deutschland
Email: peng.liu@med.ovgu.de/Peng.Liu@dzne.de
Phone: +49 391 67 25074
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