[Freesurfer] windows-based software to read freesurfer images...

2025-02-07 Thread Gonzalo Rojas Costa
External Email - Use Caution Hi: Is there any software for microsoft windows (and/or ubuntu) that allows you to read mgz file format images, and transformations in lta format? Sincerely, Gonzalo M. Rojas-Costa Adjunct Assistant Professor School of Medicine Finis Terrae Universi

[Freesurfer] Problem with FreeSurfer 8.0

2025-02-07 Thread Sahil Bajaj
External Email - Use Caution Greetings, I am trying to use the latest FreeSurfer version 8.0 (beta version) on my Mac Book Pro. But somehow I am struggling to resolve the following issue when I try to open FreeView. When I checked the FreeSurfer directory - I can see that /Applic

Re: [Freesurfer] Problem with FreeSurfer 8.0

2025-02-07 Thread fsbuild
External Email - Use Caution   Have you tried running freeview from the command line after setting up the environment? - R. $ export FREESURFER_HOME=/Applications/freesurfer/8.0.0-beta $ source $FREESURFER_HOME/SetUpFreeSurfer.sh then try running freeview without

Re: [Freesurfer] mri_synthSR on a virtual machine. Graph execution error

2025-02-07 Thread fsbuild
External Email - Use Caution  I would try using the recent freesurfer 8.0.0 beta release package installer which you can download from, https://secure-web.cisco.com/1v5XAdUiYIVEywZIISJkv2IIJr0bRqNKwWZFAR92C5eeuqNWer689LYZ_A3V7yTVij8da0R3EQ0dUdjYkymAAYjsGE9iBbn53suUm0c9nW9MNvAY

[Freesurfer] mri_synthSR on a virtual machine. Graph execution error

2025-02-07 Thread Zito Giuseppe
External Email - Use Caution Dear experts, I just installed freesurfer on a windows virtual machine. It is a windows virtual machine, in the sense that I have a windows machine, on which is installed a virtual windows machine, in which is installed Ubuntu with WSL2 (nested virt

[Freesurfer] recon-all: aparc+aseg.mgz missing labels

2025-02-07 Thread tomjandr...@sky.com
External Email - Use Caution Hello, I have run recon-all on ~1600 participants and will use the aparc+aseg.mgz parcellation to extract structural connectomes.Across the dataset, the number of labels in each parcellations ranges from 109 to 115. Where can I find a complete list o

[Freesurfer] mris_pmake for calculating surface distances between peak vertices and creating vertex ROIs

2025-02-07 Thread Fanton, Silvia
Dear FreeSurfer experts, I am reaching out to kindly ask for some clarification on how to set up mris_pmake to achieve the following: 1. Calculate the distance between pairs of peak vertices on the inflated fsaverage surface using the Dijkstra's algorithm 2. Create fixed-radius ROIs arou