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

On Saturday, January 11, 2025 at 03:58:01 PM EST, Fischl, Bruce R.,PHD <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.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.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/Practice for more info
Also check out our tutorials

On 1/8/2025 4:18 PM, 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.
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Mass General Brigham Compliance HelpLine at MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://www.massgeneralbrigham.org/complianceline <MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://www.massgeneralbrigham.org/complianceline> .
Please note that this e-mail is not secure (encrypted). If you do not wish to continue communication over unencrypted e-mail, please notify the sender of this message immediately. Continuing to send or respond to e-mail after receiving this message means you understand and accept this risk and wish to continue to communicate over unencrypted e-mail.
<1736628593324blob.jpg>

_______________________________________________

Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Mass General Brigham Compliance HelpLine at MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://www.massgeneralbrigham.org/complianceline <MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://www.massgeneralbrigham.org/complianceline> .
Please note that this e-mail is not secure (encrypted). If you do not wish to continue communication over unencrypted e-mail, please notify the sender of this message immediately. Continuing to send or respond to e-mail after receiving this message means you understand and accept this risk and wish to continue to communicate over unencrypted e-mail.