If you resample the t1 to another space, it might get blurrier.

On 8/30/2022 9:46 AM, Dilek Özkan wrote:

        External Email - Use Caution        

I decided to register T1 and Flair to DIR at the beginning. with this way, I will get the new mask in already DIR's space which means manually segmented masks' space.

In my case, I will give two inputs to the software. The rule that applies to every software is that the inputs are in the same space. I mean If you want, you can register inputs even to atlases. That's why I think it doesn't matter to change the reference based on the patient . Since the register mentality is to register to high resolution, I register in different combinations. My ınputs will not change. t1 and flair. But, If I have a 3d Flair, I register t1 to flair. If I have a 3d t1,then I register flair to t1.  Is there something wrong here?

Best,

Dilek

Dilek Özkan <dozkan521@gmail.com>, 30 Ağu 2022 Sal, 14:01 tarihinde şunu yazdı:

Hello dear all,

I want to use Freesurfer-Samseg for MS lesion segmentation(cross-sectional).

I got the T1 and Flair for this. I registered flair to t1 for every patient.

My manual lesion masks are on DIR imaging. I am using FSL for registration. When I try to register my manual mask to new mask created by freesurfer samseg, fsl couldn't recognize the lesions.mgz extension.

Or should I use t1 space for registration? i tried that one. and then, my registration result was really bad.

As a consequence, ho should we deal with mask registration?

Best,

Dilek

_______________________________________________
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> .