Dear list members,
I want to make figures of the freesurfer analyzed data. So far I am using only
surfstat toolbox for this purpose. Does anyone know any other tool for better
visualization of thickness files.
besides this how can I process the thickness files statistically - Can any
software
Hi,
When I try to run freeview on my ubuntu 13 machine, running the nvidia 5.0
cuda drivers, I get the following errors:
Xlib: extension "NV-GLX" missing on display "localhost:10.0".
Xlib: extension "NV-GLX" missing on display "localhost:10.0".
Xlib: extension "NV-GLX" missing on display "loca
Hi Doug,
Thanks for your response. I've been trying to build the sequence with your
advice but I am still stuck.
For the study we want to replicate, we will use TR=2s and we have 3x stimulus
type (N=20) presented for 1s each. We gave a window of 1s for participant to
respond. On top of this, w
Thanks Alex.
It would be of great help to me.
Kim
2013/8/16 Alex Hanganu
> Hi,
>
> I remember only finding articles that talked about the limitations of VBM.
> Attached are some examples.
>
> Alex.
>
>
>
>
> Le 15/8 9:37, jh kim a écrit :
>
> Dear experts
>
> Just a simple question.
> Is th
Hello,
I have fMRI data from a small group of subjects. I did a surface-based
MVPA (in matlab) in subjects' individual space, and for each subject I
have a vector of, say, p-values (one value for each vertex). I would
like to display these results on a template surface. So I would like to
know
sure, tksurfer and freeview can. And qdec can read in group results nad
display them.
cheers
Bruce
On
Fri, 16 Aug 2013, Muhammad Naveed Iqbal Qureshi wrote:
Dear list members,
I want to make figures of the freesurfer analyzed data. So far I am using
only surfstat toolbox for this purpose.
Hi Irina
that is what surf2surf does. The mapping is encoded in the vertex locations
in the ?h.sphere.reg files. surf2surf finds the nearest set of vertices on
the target sphere for each one on the source sphere and interpolates onto
it, then does the inverse mapping to fill holes
cheers
Bruce
Hi All,
When we say FWHM 10, does that mean a circle with a radius of 10 mm ?
Also I have some significant clusters from my analysis, will the area of the
cluster be in mm2 ? How is the area of a significant cluster calculated ? I
mean the math behind it. Is it mapping the cluster to the 1mm3 v
Hi Steve, a couple of points:
1. Don't get too stuck on the sequence being "optimal". When you go to
analyze, there will be inevitable differences between how you optimized
and how you analyze. For one, it is optimized assuming an FIR model. If
you assume a shape to the HRF, then it no longer
Hi Juergen, yes use --nofixmni if you wan MNI coordinates. Note that
there is no such thing as "MNI Talairach" coordinates. It is either MNI
or Talairach, but not both!
best
doug
On 8/14/13 8:50 AM, Jürgen Hänggi wrote:
> Dear FS experts
>
> When extracting cluster information using mri_surfc
On 8/16/13 11:01 AM, Subhabrata Chaudhury wrote:
Hi All,
When we say FWHM 10, does that mean a circle with a radius of 10 mm ?
Yes. It is actually a 2D isotropic gaussian, so isoclines are a circle.
Also I have some significant clusters from my analysis, will the area
of the cluster be in mm2
Hello Sal,
Are your trying to run freeview remotely and display locally machine? If
you type 'glxgears' at the command line does a window popup displaying
spinning gears?
-Zeke
On 08/16/2013 05:55 AM, Salil Soman wrote:
> Hi,
>
> When I try to run freeview on my ubuntu 13 machine, running the
hi - yes it as 65 -output pasted below, cheers
dsoto@wmen-dsoto3:~/Documents/fmri/rsdtianawmgui/14AB/dmri$ mri_info
dwi.nii.gz Volume information for dwi.nii.gz
type: nii
dimensions: 96 x 96 x 46 x 65
voxel sizes: 2., 2., 2.2999
type: FLOAT (3)
f
Ok, actually the error about the data and bvals/bvecs not having the same
size occured the first time you ran trac-all, but it seems to have been
fixed the second time you ran it, based on the log file.
I suspect the current problem is caused by poor registration. Have you
checked the aparc+as
Hi all,
Is there a place where I could find an atlas with all of the Brodmann
areas? Or is the one available with a portion of the areas the only
existing atlas?
Thanks,
Mike
___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mg
Nvm just read an old thread. Sorry about that.
https://mail.nmr.mgh.harvard.edu/pipermail//freesurfer/2011-August/019825.html
On Fri, Aug 16, 2013 at 11:24 AM, Michael Kranz wrote:
> Hi all,
>
> Is there a place where I could find an atlas with all of the Brodmann
> areas? Or is the one availab
the ones that are automatically generated by recon-all and stored in the
subject's label dir are all we have at the moment. We have a bunch more
that we've been trying to get out for a while, but have been having
technical issues with
cheers
Bruce
On Fri, 16 Aug 2013, Michael Kranz wrote:
> Hi
Dear Freesurfers,
Where may I find a list of freesurfer dependent libraries?
Thank you very much!
Sincerely,
Ye
___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
The information in
Ye,
Freesurfer is a fairly large and complex software bundle that contains
plenty of dependencies if you are going to attempt to build the entire
package. However, all libraries that are required to run freesurfer are
provided with the prebuilt freesurfer bundle, so long as you are running
on
Hi all,
I have a quick question related to Qdec. I know that some menus can be changed
by modifying .Qdecr. Is there one keyword that will allow me to add different
smoothing values to the FWHM menu?
Many thanks in advance for your answer,
Marie
___
Hi Marie, I don't know how to to this, but Nick may know off hand.
doug
On 08/16/2013 05:31 PM, Marie Schaer wrote:
> Hi all,
>
> I have a quick question related to Qdec. I know that some menus can be
> changed by modifying .Qdecr. Is there one keyword that will allow me to add
> different smoo
21 matches
Mail list logo
