I don't think she was responding to your question but rather to that of Ernest
On 6/21/2024 1:23 PM, Gaurav Ambwani wrote:
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Dear Yujing,
I don't think that this was my question. Here are the contents of what I sent in my previous email:
I took a 1mm T1 MRI of the MNI152 skull stripped it using HD brain extraction tool in 3D slicer, and then I registered it in fsl to a skull stripped version of a T1 weighted image of a Stroke patient (which I got from Openneuro).
The purpose of doing this is to, get the aseg.mgz file and overlay that onto the MRI of the stroke patient.
Previously I have taken the T1 1mm MNI image and received an aseg.mgz file which I have overlayed onto my MNI registered T1 weighted stroke MRI and that worked perfectly. However, This time I have taken the T1 1mm MNI image registered that to my stroke T1 MRI, and the registered image hasn't gone through freesurfer.
I have attached the recon-all.log file in this email.
Freesurfer version: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 Uname -a: Linux DESKTOP-HV9KQQ6 5.10.16.3-microsoft-standard-WSL2 #1 SMP Fri Apr 2 22:23:49 UTC 2021 x86_64 x86_64 x86_64 GNU/Linux Distributor ID: Ubuntu Description: Ubuntu 22.04.4 LTS Release: 22.04 Codename: jammy
I am using a WSL in windows 11 (64 bit)
Thank you, Best Wishes, Gaurav Ambwani.
*From:* freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Huang, Yujing YHUANG43@MGH.HARVARD.EDU *Sent:* Friday, June 21, 2024 7:46 AM *To:* Freesurfer support list freesurfer@nmr.mgh.harvard.edu *Subject:* Re: [Freesurfer] Calculating intensity of Individual voxel
‘mri_info vol.mgz --voxel c r s’ will print the voxel value from col row slice of all frames.
Best,
Yujing
*From:*freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu *On Behalf Of *ERNEST KISSI *Sent:* Friday, June 21, 2024 5:16 AM *To:* Freesurfer support list freesurfer@nmr.mgh.harvard.edu *Subject:* [Freesurfer] Calculating intensity of Individual voxel
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Hi, freesurfer team
Is there a way to calculate the intensity of a voxel.Let say, I have a voxel with coordinate 20, 30 and 34 and I wanna know the intensity of it. Can it be done in freesurfer?
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