[Freesurfer] segmentation and parcellation advances

2018-04-14 Thread John Absher
During the last lectures of the recent 4/2-5 course, Dr. Fischl referenced code that would properly segment/parcellate sub-par images. If we don't have a good 3D MPRAGE or SPGR T1 image, is there a specific command I need to use for these alternate/sub-par inputs into recon-all ? If not, when mi

Re: [Freesurfer] Segmentation of anterior and posterior commissures

2018-04-14 Thread Bruce Fischl
Hi Antonin unfortunately the atlas subjects were not collected with an IRB that allows us to distribute them. We are working to update the atlas with data we can distribute, but that is not a short-term solution. You second proposal would work I imagine cheers Bruce On Sat, 14 Apr 2018, Antoni

Re: [Freesurfer] fmriprep to fsfast interface

2018-04-14 Thread Boggess, Matthew Jozsef
Hello, I just wanted to follow up to see if anyone could help with any of my questions, particularly # 1. Thank you! Matt Boggess From: freesurfer-boun...@nmr.mgh.harvard.edu on behalf of Boggess, Matthew Jozsef Sent: Thursday, April 5, 2018 8:02:07 AM To

[Freesurfer] Segmentation of anterior and posterior commissures

2018-04-14 Thread Antonin Skoch
Dear experts, a question was raised whether it is possible to automatically segment anterior and posterior commissures. Do you think that it is achievable with reasonable accuracy, using in-vivo data of 0.7 mm3 resolution? I was thinking what would be the best way: a) Is it possible to custom