Hi, FreeSurfer experts
I have a question regarding visualizing the cortical projections of a fiber
bundle using FreeSurfer based on the data from a group of subjects. Since I am
interested in seeing both the cortical projections on the surface and the
trajectory of the fiber bundle derived
Hi, Bruce
The command line I used is:
mris_fill -r 1 -c rh.white rh.white.nii.gz
I attached the rh.white in my previous mail. Could you see it in the attachment?
Thank you!
Longchuan
From: Bruce Fischl fis...@nmr.mgh.harvard.edu
To: Longchuan Li leonad
-c -r 1 lh.white lh.white.nii.gz
Thanks
Longchuan
From: Bruce Fischl fis...@nmr.mgh.harvard.edu
To: Longchuan Li leonad...@yahoo.com
Cc: FreeSurfer freesurfer@nmr.mgh.harvard.edu
Sent: Sunday, March 17, 2013 11:47 AM
Subject: Re: [Freesurfer] make a volume
Hi, FreeSurfer experts
I have a question regarding making a volume template based on the surface
template for non-human primates. I have made a surface template using a group
of monkeys and now, we want to see the result, which is a mgh surface file, on
the coronal slices of the template. So I
: Bruce Fischl fis...@nmr.mgh.harvard.edu
To: Longchuan Li leonad...@yahoo.com
Cc: FreeSurfer freesurfer@nmr.mgh.harvard.edu
Sent: Friday, March 15, 2013 4:56 PM
Subject: Re: [Freesurfer] make a volume template from the surface-based
template for non-human primates
Hi Longchuan
what kind
From: Douglas N Greve gr...@nmr.mgh.harvard.edu
To: Longchuan Li leonad...@yahoo.com
Cc: freesurfer@nmr.mgh.harvard.edu freesurfer@nmr.mgh.harvard.edu
Sent: Wednesday, November 21, 2012 3:20 PM
Subject: Re: [Freesurfer] the positions of white/pial surfaces and the brain.mgz
Hi Longchuan, I'm
To: Longchuan Li leonad...@yahoo.com
Cc: freesurfer@nmr.mgh.harvard.edu freesurfer@nmr.mgh.harvard.edu; Bruce
Fischl fis...@nmr.mgh.harvard.edu
Sent: Tuesday, November 20, 2012 3:19 PM
Subject: Re: [Freesurfer] the positions of white/pial surfaces and the brain.mgz
Hi Longchuan, mris_fill create
From: Bruce Fischl fis...@nmr.mgh.harvard.edu
To: Longchuan Li leonad...@yahoo.com
Cc: FreeSurfer freesurfer@nmr.mgh.harvard.edu
Sent: Monday, November 19, 2012 8:57 AM
Subject: Re: [Freesurfer] the positions of white/pial surfaces and the brain.mgz
Hi Longchuan
have you
used as the template for motion correction.
doug
On 11/19/2012 10:30 AM, Bruce Fischl wrote:
Hi Longchuan
yes, I think you can do this with tkregister2. Doug can give you the
details
Bruce
On Mon, 19 Nov 2012, Longchuan Li wrote:
Hi, Bruce
Thank you for the information. I will re-run recon
On 11/19/2012 10:30 AM, Bruce Fischl wrote:
Hi Longchuan
yes, I think you can do this with tkregister2. Doug can give you the
details
Bruce
On Mon, 19 Nov 2012, Longchuan Li wrote:
Hi, Bruce
Thank you for the information. I will re-run recon-all using -cm
option to
see if the problem
Hi, FreeSurfer experts
I have a question regarding coregistering white and pial surfaces with the
brain.mgz and would appreciate your help on this. I am working on non-human
primates and noticed that my white and pial surfaces do not have identical
positions as brain.mgz. For example, when I
Hi, Doug and other FreeSurfer experts:
I noticed that the color in a surface file I generated (*.mgh with the values
ranging from 0 to 1) does not match that in the color bar. For example, the
lowest value in the surface file has much darker red hue than the lowest values
in the color bar
Hi, all
I am trying to transfer some labels on a high-resolution white surface mesh
(~100K) to a corresponding low-resolution white mesh(~10K) that is generated
using FS function mris_decimate. Could someone tell me what is the most
efficient way to realize that?
Many thanks in advance!
Hi, FreeSurfer experts
Currently, I am planning to run tractography using wm surfaces as seed masks
and pial surfaces as stop masks implemented in FSL. In order to make fibers go
through one hemisphere to another, I need to remove the medial wall from both
seed surfaces and the pial surfaces.
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