On Wed, 17 Nov 2004, Joongnam Yang wrote:
> Thanks, Kevin
> So, I guess there is nothing special about retinotopy data, but the
> functionl overlay
> that I got doesn't look right. (not much activation)
>
> Here is the two steps that I've done for the functional data before I
> overlay it onto a
Thanks, Kevin
So, I guess there is nothing special about retinotopy data, but the
functionl overlay
that I got doesn't look right. (not much activation)
Have you tried playing with the thresholds, in the
View->Configure->Functional Overlay dialog? I'm not sure if they will be
set up properly for
Thanks, Kevin
So, I guess there is nothing special about retinotopy data, but the
functionl overlay
that I got doesn't look right. (not much activation)
Here is the two steps that I've done for the functional data before I
overlay it onto anatomical data. Any comments are appreciated.
1. use "
Please find attached revised matlab functions for Freesurfer RAS to Talairach
conversion. I found a problem with the input matrix orientation in the mni2tal
function; it is now restricted to 3xN inputs (although there is still a
potential problem for 3x3 input matrices if the XYZ values are row
Hi,
please find attached some matlab functions this transformation. All of my
freesurfer_*.m files are available by anonymous cvs checkout, see
http://eeg.sf.net for details.
Kind regards, Darren
Doug Greve wrote:
If you've done the freesurfer recon, then you should have one in
yoursubject/mri/
sorry, but not really. We have *very* fews suns around, and those are
mostly old and lightly used.
Bruce
On Wed, 17 Nov 2004, Catherine Schevon wrote:
> It says on the website that there is a version that will run on Solaris but
> it's untested...is there any experience with it or any more rece
one thing i can safely say is that some of the bugs fixed for osx should
percolate into bugs fixed for solaris (endianness things especially). but
solaris testing has not been done. please feel free to give it a whirl
and let us know what happens?
thanks,
--vicka
On Wed, Nov 17, 2004 at 12:04:
If you've done the freesurfer recon, then you should have one in
yoursubject/mri/transforms.
The matlab file just converts MNI talairach coordinates to "true"
talairach coordinates. The MNI talairach atlas does not map to the true
talairach atlas very well, and this attempts to fix it. The
talair
It says on the website that there is a version that will run on Solaris but
it's untested...is there any experience with it or any more recent testing?
Cathy
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Hi Bruce,
I found the error messages in SUBJECTID/scripts/csurf.log
The error was that there is no talairach.xfm in /mri/transorms directory.
I though that using tkregister2 for co-registration would be enough.
Would you let me know how to generate talairach.xfm?
Nam.
__
h, I'll leave this for Kevin.
Bruce
On Wed, 17 Nov 2004, Joongnam Yang wrote:
> The following is in .xdebug_tksurfer.
>
> Segfault
>
>
> xDebug stack (length: 1)
> 00:
> 00:
>
The following is in .xdebug_tksurfer.
Segfault
xDebug stack (length: 1)
00:
00:
Segfault
Does it ring a bell, Bruce?
Nam.
Thank you Doug,
What I have is MEG data in RAS coordinates and I want to convert it to
Talairach.
So I do not have a talairach.xfm file.So how does one do it. will the m
file you gave work without the .xfm file
Ajay
Doug Greve wrote:
If you have the RAS in a vector: v = [R A S 1]';
And the tala
Hi Nam,
can you exit tksurfer and look in the file .xdebug_tksurfer to see if
there are any error messages?
cheers,
Bruce
On Wed, 17 Nov 2004, Joongnam Yang wrote:
> The "Load Overlay" window in TkSurfer is not working for me.
> The window has two fileds to fill in, "Load Overlay" and "User
> R
The "Load Overlay" window in TkSurfer is not working for me.
The window has two fileds to fill in, "Load Overlay" and "User
Registration".
What's strange is that whatever I type in those two fields, TkSurfer doesn't
complain.
For example, if I type in "hello" and "abc.dat" literally for those two
f
Hi,
You need a talairach.xfm which is a RAS-to-"MNI-Talairach" transform, which
should be present in $subject/mri/transforms (this is the 4x4 affine
transform).
The following site explains the difference between "MNI" talairach and
the "real" talairach space:
http://www.mrc-cbu.cam.ac.uk/Imag
If you have the RAS in a vector: v = [R A S 1]';
And the talairach.xfm matrix X, then MNI talairach cooridnates are:
vMNI = X*v;
These can be computed to something closer to true talairach coords using
the attached mfile, originally from Matthew Brett.
doug
Ajay Pillai wrote:
>
> Hello a
Hello all,
Does any one have a matlab routine to convert given coordinates from RAS
to talarach space.
If not atleas give an indication of how to do it?
Ajay
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Hi Ajay,
yes, the vertex indexing is the same for all surface configurations of a
given surface (e.g. lh.inflated, lh.white, lh.pial, lh.sphere, etc...).
The ascii patch file format is as follows:
#!ascii version of patch
.
.
.
.
.
.
where there is one entry for each vertex in the
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