dcmunpack scans the top folder and extracts all dicom series numbers. By default, all dicom series in the directory will be converted.
Yujing
From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu On Behalf Of allio34218@aol.com Sent: Sunday, January 12, 2025 3:01 PM To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] New user
External Email - Use Caution If an MRI scan produced many folders with many images in each folder, how do you know which to run the dcmunpack command on?
For example: [Inline image]
[Inline image]
On Saturday, January 11, 2025 at 03:58:01 PM EST, Fischl, Bruce R.,PHD <bfischl@mgh.harvard.edumailto:bfischl@mgh.harvard.edu> wrote:
Hi Allison
The parameter you give the -i flag is the file name for a single slice in the correct dicom series (the t1-weighted scan).
Cheers Bruce
On Jan 11, 2025, at 3:51 PM, allio34218@aol.commailto:allio34218@aol.com wrote:
External Email - Use Caution Hi, I'm following the tutorial for dcmunpack, but am getting stuck here:
Any ideas on what I'm doing wrong?
<1736628593324blob.jpg>
Thanks, Allison O.
On Thursday, January 9, 2025 at 08:32:09 AM EST, Douglas N. Greve <dgreve@mgh.harvard.edumailto:dgreve@mgh.harvard.edu> wrote:
welcome to freesurfer! To convert from dicom to mgz, you can do a couple of things: use mri_convert, eg, mri_convert /path/to/dicomfile mprage.mgz Then run recon-all like recon-all -i mprage.mgz -s subjectname -all You can also use dcmunpack to unpack all volumes from a dicom directory See MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/Practicehttps://secure-web.cisco.com/1vtfYtMQHqK4cgAEOfqmyXfcH0c-qin6tLFTm01aIjCqzO08VQwL7Iv4xhxEvx_ADagViba3hAxYLfKAZFU4O_MBtTbqoQLXVNvI725QUCYQppof99a3V649Hymlo6xyBdeHwt5OCtbf93Y5pV2MZRkYsCYKglLALkQ-XQ2agenblfI8MKJW8PrlbN5BlqMiCP_q28QnDU4_iNXI2kBIEb5IZPt9-IGO2oBk98EH_9kGZC_PxDZ0VG_j2lsX17jZRa3MPocx87vrAJiXPRiLK-Ujg43u-XUkSs0wkuMgQfeMRBJGKXHeG6tqQYIHOQcl-QvbogGmlkYS6B1OKNJDq5w/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FFsTutorial%2FPractice for more info Also check out our tutorials
On 1/8/2025 4:18 PM, allio34218@aol.commailto:allio34218@aol.com wrote:
External Email - Use Caution Hi, I was wondering if anyone can point me to a good tutorial that would focus on how to upload and process DICOM data into FS / FreeView.
I have a recent Triage Brain Atrophy report from NeuroQuant and would like to see how this compares to results generated in FS.
I am a brand-new user and just installed FS on my computer.
Thank you, Allison O.
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