If you want to use FSL, you will have to convert to nifit, eg,
mri_convert file.mgz file.nii.gz
On 8/30/2022 7:01 AM, Dilek Özkan wrote:
External Email - Use Caution
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
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
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 https://www.massgeneralbrigham.org/complianceline
<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.
