Hi Bruno
it looks to me like there is very little gray/white contrast, which is
the root of your problem. YOu could try limiting the intensity ranges in
the segmentation and surface deformation steps using expert options (e.g.
-wlo for mri_segment). We can also help improve the acquisition. If that is
an option it would be highly recommended - send us the details
cheers
Bruce
On Thu, 20 Feb 2020, Bruno Pastorello wrote:
External Email - Use Caution
Hi Nayan,Thanks for the reply. I already read this troubleshooting topics
page, and I don't know if I correctly understood, it is to fix specific
points where segmentation fails. In the case of my subject, all brain
surface is wrong. The all WM surface is located on pial, not specific
points.
Is there another automatic way to fix this or just a "first quick" to force
that major part of WM should be correctly located ? Could you see the
screenshot attached?
Best Bruno
[gmaillogo1.png]
Bruno Fraccini Pastorello
Físico Médico | Ressonância Magnética | LIM44
Instituto de Radiologia do HCFMUSP
Ramal: +55 11 2661-7619
bruno.pastore...@hc.fm.usp.br
Antes de imprimir pense em sua responsabilidade e compromisso com
o AMBIENTE.
Em qui., 20 de fev. de 2020 às 11:40, nayan wadhwani <nayanw...@gmail.com>
escreveu:
External Email - Use Caution
Hello,
You can follow
https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/TroubleshootingDataV6.
0 to correct your defects.
Thanks and Regards
Nayan Wadhwani
On Thu, Feb 20, 2020 at 8:04 PM Bruno Pastorello
<bruno.pastore...@hc.fm.usp.br> wrote:
External Email - Use Caution
Dear freesurfer developers,I have a subject that the wm
surface is located where pial surface should be and pial
surface is located out of the brain. I tried to use -FLAIR
flag but the result is the same. Do you know what could be
happening? How to fix this problem?
thanks in advance
Bruno
[gmaillogo1.png]
Bruno Fraccini Pastorello
Físico Médico | Ressonância Magnética | LIM44
Instituto de Radiologia do HCFMUSP
Ramal: +55 11 2661-7619
bruno.pastore...@hc.fm.usp.br
Antes de imprimir pense em sua responsabilidade e compromisso
com o AMBIENTE.
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