Re: [Freesurfer] Issues Loading files from a Network Drive

External Email - Use Caution Hello M, If you scroll down on this pagehttps://surfer.nmr.mgh.harvard.edu/fswiki/VM_67to the link for,Vbox_Windows_mount_external_drive - you will see an example of mounting an external SSD that has been formatted in the old exFAT file system.  I th

Re: [Freesurfer] About recon-all -i option

External Email - Use Caution Thank you for your quick response! On 2022/11/01 7:41, Fischl, Bruce R.,PHD wrote: > Yes, that should be fine > > -Original Message- > From: freesurfer-boun...@nmr.mgh.harvard.edu > On Behalf Of Ryosuke Hayashi > Sent: Monday, October 31, 20

[Freesurfer] Issues Loading files from a Network Drive

External Email - Use Caution Hello, I am having issues accessing files using "load volume." The files I am trying to load are from a Network Attached Storage server. I can access the files fine through files explorer, but the entire directory does not appear when trying to select

Re: [Freesurfer] About recon-all -i option

Yes, that should be fine -Original Message- From: freesurfer-boun...@nmr.mgh.harvard.edu On Behalf Of Ryosuke Hayashi Sent: Monday, October 31, 2022 6:31 PM To: freesurfer Subject: [Freesurfer] About recon-all -i option External Email - Use Caution Dear All, Hi. I hav

[Freesurfer] About recon-all -i option

External Email - Use Caution Dear All, Hi. I have a question about the -i option for "recon-all". According to the explanation on the following page, the -i option specifies DICOM and NIfTI files, but is it OK to specify a mgz file with the -i option? https://secure-web.cisco.com

[Freesurfer] infant Freesurfer - subcortical/white matter segmentation

External Email - Use Caution Hello experts, I've begun using infantFS for neonates and I'am interested in the subcortical segmentation. I noticed that the internal capsule is delineated in the manseg-tsubj2subj.NIFTYREG volumes (irrespective of the template's having gmwm or not),

[Freesurfer] Mapping the labels onto the aparc atlas

External Email - Use Caution Hi Freesurfer devs, We have used mri_aparc2aseg to map the Stanford mpm/vpnl labels unto the gray matter ribbon. We notice that when analyzing the resulting mpm.vpnl+aseg.mgz that the regions/voxels of the mpm.vpnl+aseg.mgz stretch out the correspond

[Freesurfer] design is ill-conditioned

External Email - Use Caution Dear experts, I’m running into an error when running selxavg3. It says the design is ill-conditioned. I’m a bit stuck, because the same pipeline works in most subjects, but not all. Also, if I exchange the functional scan (f.nii.gz) with a scan from

[Freesurfer] Password Virtual Image file

External Email - Use Caution Dear Freesurfer Team, I downloaded the Virtual Box image provided for windows computers. But was unable to extract the 7zip file. I read that I needed to send an e mail to this group. Can anybody help? Thank you Bart

[Freesurfer] Segmentation of hippocampus(left), grey and white matter regions.

External Email - Use Caution Hello everyone. I’m new to FREESURFER I would like to segment the sMRI images. I have extracted(skull stripped) the brain region from the sMRI image using BET. but i'm interested in hippocampus(left), grey and white matter regions. Can you p

Re: [Freesurfer] Cutting an occipital patch

External Email - Use Caution Hi again Douglas, Do you know the answer to my last mail? Do I need to compress all functional nii files to one single file? Thanks! Noam ‫בתאריך יום ב׳, 24 באוק׳ 2022 ב-19:35 מאת ‪Noam Khayat‬‏ <‪ noamkha...@gmail.com‬‏>:‬ > So if I have 165 nii fil