Re: [Freesurfer] How to find topological defects

External Email - Use Caution Amazing, thanks. Any place to see a list of more shortcuts like this? -Ken --- Original Message --- On Monday, March 6th, 2023 at 11:16 PM, Douglas N. Greve wrote: > If you are using 7.X, you can run > tkmeditfv subject norm.mgz -defects > Th

Re: [Freesurfer] Flipping Thickness Matrices

Hi Anam, Check out mris_left_right_register. It's not super well documented, but it takes as input the right and left hemispheres, inflated onto a sphere, and outputs the left hemisphere registered to the right and the right hemisphere registered to the left, also inflated onto a sphere. If y

[Freesurfer] Flipping Thickness Matrices

External Email - Use Caution Dear FreeSurfer Community, Has anyone had any success with solving the below problem: I am dealing with brain lesions which may present on the left or right hemisphere of the brain. 1. I wish to 'FLIP' RIGHT sided hemispheres (which contain lesi

[Freesurfer] freesurfer could not parse freeview-loadable surface label

External Email - Use Caution Hello Freesurfer community I am trying to transform a label file obtained in subject native surface space to subject native volume space. This label file was obtained through binarizing the subject lh.sulc morphological data through the function

[Freesurfer] mri_segstats

External Email - Use Caution Dear Freesurfer community, Please forgive me for the basic nature of my question. I was wondering whether there is an argument that can be included in mri_segstats to display the results in cubic centimeters (cm^3) instead of cubic millimeters (mm^3). t

Re: [Freesurfer] Freeview Edit options restricted

External Email - Use Caution Also is it possible to not archive or not include email signature on that reply email. didn't mean to have my email signature on there On Tue, Mar 7, 2023 at 12:30 PM Carlos Alcocer wrote: > Thank you for your prompt response. Yes, while it does not

[Freesurfer] password

External Email - Use Caution Hello, I would like to get the password for unzipping FS_7_2_0_ubuntu_18_04_06.ova.7z, thank you. *EMAIL DISCLAIMER* This email and any files transmitted with it may be confidential and are intended solely for

Re: [Freesurfer] Freeview Edit options restricted

External Email - Use Caution Thank you for your prompt response. Yes, while it does not show the brush size and certain menu options being grayed out, when I hover the cursor over these options the cursor becomes grayed out and it does not let me click on any options. For example i

Re: [Freesurfer] Freeview Edit options restricted

Recon Edit mode will disable a few options. But it looks to me the Brush Size is not grayed out from your screenshot. To close the window, you can just switch to Navigate mode. Ruopeng On Mar 7, 2023, at 11:34 AM, Carlos Alcocer mailto:cd...@cornell.edu>> wrote: External Email - Use

[Freesurfer] Freeview Edit options restricted

External Email - Use Caution Hello, When I try to do recon-edit, it does not let me click on certain options ie. changin the brush size. It additionally doesnt let me exit out of or minimize it. I am running the most recent version of freesurfer (7.3.2) on linux (wsl). I reinstall

[Freesurfer] pass code for FS 7.2.0 archive

External Email - Use Caution Hello, Could you please send me the pass code for extracting the archive of FS 7.2.0 (FS_7_2_0_Ubuntu_18_04_06.ova.7z)? Thanks, Lyubomir ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu

Re: [Freesurfer] ERROR: cannot find or read transforms/talairach.m3z

'-careg' probably is not needed for autorecon3 if it is run separately after autorecon2. From: freesurfer-boun...@nmr.mgh.harvard.edu On Behalf Of Huang, Yujing Sent: Tuesday, March 7, 2023 10:53 AM To: Freesurfer support list Subject: Re: [Freesurfer] ERROR: cannot find or read transforms/tal

Re: [Freesurfer] ERROR: cannot find or read transforms/talairach.m3z

Hi, Can you try adding '-careg' to your recon-all command line after -autorecon2/-autorecon3? Best, Yujing From: freesurfer-boun...@nmr.mgh.harvard.edu On Behalf Of Fraser Aitken Sent: Tuesday, March 7, 2023 10:45 AM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] ERROR: cannot find

[Freesurfer] ERROR: cannot find or read transforms/talairach.m3z

External Email - Use Caution Hi all I have upgraded to 7.3.2 and i seem to be having issues running recon all after unto recon1. Basically, auto recon completes but after I have checked the brain masks and go to run auto recon 2 and 3 i get the following error reading 1 input v

[Freesurfer] Fwd: VirtualBox pass code

External Email - Use Caution Hello, I am following up on this request. Is there any way to receive the passcode to unlock VirtualBox FS_7_2_0_ubuntu_18_04_06.ova.7z ? Thanks in advance, Jennifer > Begin forwarded message: > > From: Jennifer Kilmer > Subject: VirtualBox pass