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Hi,
Thank you for your interest in our tool. Currently these three nuclei are not
segmented by the network implementation, but they will be segmented by the
Bayesian tool once we have integrated it into FreeSurfer.
The Pc, VM and Pt are the three smallest nuclei in our atlas, with volumes
generally less than 2-3 mm^3. As such they often do not have the highest
posterior probability in any voxels during Bayesian segmentation and therefore
don't appear in the output segmentations or only in very few voxels. We
therefore decided to remove these labels when training the network
implementation.
To view the segmentations you can use the following command substituting the
paths for the segmentation, V1, FA and aligned T1 volumes
freeview <path/to/t1> <path/to/segmentation>:colormap=LUT -dti <path/to/V1>
<path/to/FA>
Best wishes,
Henry
========================================================
Henry Tregidgo, PhD
Research Associate
Centre for Medical Image Computing (CMIC),
University College London (UCL)
________________________________
From: freesurfer-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of 胡馨月 <hudu...@gmail.com>
Sent: 18 May 2023 13:15
To: freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] Help Needed with Thalamic NucleiDTI Module and Freeview
Display
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Dear FreeSurfer Experts,
I hope you are doing well. I have encountered an issue while using the Thalamic
NucleiDTI module in FreeSurfer and would appreciate your guidance.
I am attempting to segment the thalamus using the module, but the Pc, VM, and
Pt nuclei are missing in the segmentation results. Could you please advise me
on resolving this issue?
Additionally, I would like instructions on how to display the Thalamic
NucleiDTI module results in Freeview. Please guide me on the steps to visualize
the results accurately in Freeview.
Thank you for your support. I look forward to your response.
Best regards,
Xinyue Hu West China Hospital of Sichuan University
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