Re: [Freesurfer] Regarding the Use of Custom atlases containing deep brain nuclei in recon-all segmentation

2023-04-12 Thread Douglas N. Greve
External Email - Use Caution We don't currently segment the STN, sorry. On 4/12/2023 7:30 AM, Abhishek Prabhu wrote: External Email - Use Caution Dear Freesurfers, I am a neuroscience master's student and new to free surfer. I had a task of segmenting deep brain

Re: [Freesurfer] mris_flatten Version 6 vs. 7

2023-04-12 Thread Vinke, Louis N.,PHD
External Email - Use Caution In occipital flat map cases where I’ve seen that happen sometimes it can be avoided by having the calcarine sulcus cut not extend too far around the occipital pole (i.e., slightly shorter cut length), but it definitely varies from case to case.

[Freesurfer] Regarding the Use of Custom atlases containing deep brain nuclei in recon-all segmentation

2023-04-12 Thread Abhishek Prabhu
External Email - Use Caution Dear Freesurfers, I am a neuroscience master's student and new to free surfer. I had a task of segmenting deep brain nuclei from T1 scans using free surfer, which I was able to do successfully, but ran into some problems. The atlas used by Freesurfer