Hi Sarah
Sorry, I’m not sure we have much to add. We don’t flatten much any longer, and
the cuts are kind of ad hoc – the one around the medial wall to get rid of
non-cortical stuff, then the radial ones from there to remove particularly the
curvature from the 3 poles. Mostly we just follow what Anders and Marty started
doing way back when
Bruce
From: freesurfer-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@nmr.mgh.harvard.edu> On Behalf Of Sarah Lavelle
Sent: Tuesday, October 25, 2022 5:30 AM
To: freesurfer@nmr.mgh.harvard.edu
Subject: [Freesurfer] help
External Email - Use Caution
Dear freesurfer,
Are there any additional resources on how to make cuts? I have found this
MailScanner has detected a possible fraud attempt from "secure-web.cisco.com"
claiming to be
https://surfer.nmr.mgh.harvard.edu/fswiki/recon-all#Flattening<https://secure-web.cisco.com/18_liDyv7h8S0t-GuSrqbS0mexl0ornQBxqLR6v5JlLJUxICtX_m72JgFOKgqmcmDmNUv_rPvux5Bj3HvJdGS1wmDMB49Af-BJx9Q5hozmhhuUcgnG8xeUpfoO4g2LSz1OdFi_9on9h5ngyGR9FDKKAgMIOCzYJezDsIESZYkKSRdPHkAWMlYTYYAHYx4iD-JqVc30z2DimXPHyrLEyGpNChw8D4PkkLoasWz2jf7w4Pefp9yJvvDnZx-gyl0BhCk8ul3x-2cGVK0SVa-LKxKQHzToFKqsURPjIXBXX2NOr8s_VgCRqHl8WzMW3bCwJiearZFL1Avboe-CZ8CLgZe_w/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2Frecon-all%23Flattening>
but it isn't enough for the project I am doing. I want to flatten the whole
surface but I may need to change where I am cutting from patient to patient.
How do you know how big the hole should be? and how many relaxation cuts should
you make? How long should they be? If you have any more guidance on how to cut
to minimise distortion, please let me know!
Also when I perform the mris_flatten function using my patch, my terminal gives
me a % near the end saying "41% total metric distortion". Can you confirm that
this value is the total metric distortion from an inflated surface to a flatmap
surface using my chosen patch?
Many thanks,
Sarah Lavelle
Trinity College Dublin
_______________________________________________
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.
