Hi, there,
I am running the tksurfer command to view the cortical surface data as tksurfer
bert lh inflated. But I met a problem.
I only can view a sliver part of the brain. This sliver portion can rotate and
do everything that tksurfer is supposed to do,
but I can't view any more of the brai
setenv doublebufferflag=0tksurfer bert lh inflated
---
Pedro Paulo de M. Oliveira Junior
2009/8/5 Guang Zeng
> Hi, there,
>
> I am running the tksurfer command to view the cortical surface data as
> *tksurfer
> bert lh inflated*. But I
Thanks a lot, I have tried this one. It does not work.
I knew someone can solve this problem on a local machine by extracting a NVidia
driver files and copying it to somewhere to overwrite some original OpenGL
files. But I do not want to do this procedure on each computer in our labs.
The output is not a curvature file, it is a surface.
doug
Feng-Xian Yan wrote:
>
> Hi,
>
> I try again with you said. First, I type this command“mri_surf2surf
> --srcsubject noise0.5_0 --srcsurfval thickness --sfmt curv
> --trgsubject noise0.5_0 --trgsurfval noise0.5_0_tal.xfm --tfmt curv
> --hem
Use the --minarea option
doug
Jürgen Hänggi wrote:
> Dear FS experts
>
> We would like to threshold the cluster size in the sig.mgh image in order to
> exclude clusters that are only a few vertices in size, but I cannot find
> this option
>
> Is it possible to do it within FS? If yes, how to do i
Dear all,
I have 3D masks defined in MNI space using FSL. I would like to
transform these masks to each subjects anatomical space in FreeSurfer
and measure the volumes corresponding to these masks. Should I just
count the number of voxels in each mask after transformation to the
structural
Help,
Sorry to bother you, but I am looking for my
tksurfer hero! I just installed freesurfer on my laptop (centos5
virtual machine, 4Go RAM, NIVDIA quadro 110M, intel duo t2...@1.66ghz).
Everything goes well until I tried tksurfer. Only the anterior part of
bert's brain is displayed.(medit is ok;
The easiest way is to align the brain.mgz to mni152 with flirt, then
apply the inverse transform
Nasim Maleki wrote:
> Dear all,
>
> I have 3D masks defined in MNI space using FSL. I would like to
> transform these masks to each subjects anatomical space in FreeSurfer
> and measure the volume
Two procedures may help you:
1) setenv doublebufferflag 1
2) If you virtual machine is VirtualBox, upgrade to 3.0 and enable OpenGL
---
Pedro Paulo de M. Oliveira Junior
Diretor de Operações
Netfilter & SpeedComm Telecom
--- New Netfilter 3.
Hi all,
I am looking for a powerful, robust tool for modifying dicom headers
that can be called from the command-line and scripted. For example, I
may need to alter the subject ID with which a dicom study was uploaded.
We are managing a multi-site study and the various sites do not always
upl
dcmtk works pretty well and is easy to use:
http://dicom.offis.de/dcmtk.php.en
Jared Price wrote:
> Hi all,
> I am looking for a powerful, robust tool for modifying dicom headers
> that can be called from the command-line and scripted. For example, I
> may need to alter the subject ID with whic
Hello,
I apologize if this is a very simple question, but how would you set up a
contrast matrix to look at the interaction of 2 variables on a measure?
For example, my fsgd file contains:
class=1
variables=2
Input Subjid class var1 var2
When I tried using a contrast of 0_1_1 the significance
0 1 1 will just be the mean of the slopes of var1 and var2. Looks like
you want 0 1 -1 to look for the interaction.
doug
Victoria Williams wrote:
> Hello,
>
> I apologize if this is a very simple question, but how would you set up a
> contrast matrix to look at the interaction of 2 variables on
Hi Tori,
There is no way to investigate the interaction of two continuous effects
with the contrast vector alone, if the design matrix itself only
involves main effect terms. The interaction itself needs to be coded
into the design matrix.
Note that it can become tricky as to the proper coeffici
Oops, Mike is right, disregard my previous email.
doug
Michael Harms wrote:
> Hi Tori,
> There is no way to investigate the interaction of two continuous effects
> with the contrast vector alone, if the design matrix itself only
> involves main effect terms. The interaction itself needs to be co
Just to clarify what exactly do you mean by "interaction"?
("interaction" is a somewhat nebulous term, as indicated by Doug's and
mine differing responses).
If you want to look for a difference in slopes of two main continuous
effects, then a contrast vector can indeed be set up to handle that (a
You might want to check out the "DicomBrowser" as well, which can change
many files at a time (e.g., for an individual subject), although I don't
know if it can be made scriptable.
http://nrg.wustl.edu/projects/DICOM/DicomBrowser.jsp
cheers,
Mike H.
On Wed, 2009-08-05 at 15:31 -0400, Chris Wats
Hi,
I have tried to run recon-all on an image and received the following error:
"White matter intensity 0 is lower than CSF intensity 19. Please
examine input images. Will terminate...
MRIstripSkull failed.
The T1 images look fine, and I have run several similar brains with
no problem. This
Hi Dana,
Does the talairach registration look okay.
And how do orig.mgz/nu.mgz look.
Sita.
On Wed, 5 Aug 2009, Dana W. Moore wrote:
> Hi,
>
> I have tried to run recon-all on an image and received the following error:
>
> "White matter intensity 0 is lower than CSF intensity 19. Please
> exa
Hi Dana,
have you checked the tal xform?
Bruce
On Wed, 5 Aug 2009, Dana W. Moore wrote:
> Hi,
>
> I have tried to run recon-all on an image and received the following error:
>
> "White matter intensity 0 is lower than CSF intensity 19. Please
> examine input images. Will terminate...
>
> MRIstri
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