If you've made a label from a group surface, then you should use
mri_label2label with the --regmethod surface option to map to the
individuals.
As for isxavg-re-sess, there is a problem with it reading in
non-bfloat files. Use roisummary-sess to create a summary file, then
read the spread sheet
Can you send the full text output of the error again?
doug
On Fri, 15 Feb 2008, Juergen Haenggi wrote:
Dear FS experts, Dear Doug
We are still trying to do an average of 92 subjects, but failed due to the
known problem with make_average_subject. Is there any work around for that
problem o
Hello,
Since the ICV ("eTIV") value is derived from the determinant of
"talairach_with_skull.lta", we were wondering if there is a way to check
the accuracy of this transform? (e.g., as there is for talairach.xfm
using tkregister2)
Using 'mri_convert', we were able to convert
"RB_all_withskull_2
You can use mri_vol2vol to convert the input volume to the output
space (ie, reslice), or you can use the --no-resample option to keep
it in it's native space and just change the qform/sform matrix (sounds
like what you want).
doug
On Fri, 15 Feb 2008, Garrett McGrath wrote:
To the freesurf
Thanks all for the responces, I'll give these things a try.
Bruce Fischl wrote:
I think you can use mri_vol2vol to apply the register.dat created by
tkregister2.
cheers,
Bruce
On Fri, 15 Feb 2008, Anthony Dick wrote:
Hi Garrett-
Ziad wrote a program for AFNI (@SUMA_Make_Spec_FS) which conve
Hi Freesurfers,
I have created ROI masks for each subject by saving a patch from my averaged
brain using tksurfer. I am assuming that the way to average ROIs across
subjects is to use talairch space to create one patch and use that patch for
each subject with func2roi. I used the command belo
I think you can use mri_vol2vol to apply the register.dat created by
tkregister2.
cheers,
Bruce
On Fri, 15 Feb 2008, Anthony Dick wrote:
Hi Garrett-
Ziad wrote a program for AFNI (@SUMA_Make_Spec_FS) which converts all .mgz
files to nifti format using Freesurfer's mri_convert. I believe ther
Hi Garrett-
Ziad wrote a program for AFNI (@SUMA_Make_Spec_FS) which converts all
.mgz files to nifti format using Freesurfer's mri_convert. I believe
there is also an AFNI program @SUMA_FSvolToBRIK which may do what you
want? The AFNI message board has some information on this, although
mri_
To the freesurfer people:
I would like to know if there is a way to generate a new volume file
from the original volume file using the matrix of transformations
generated by tkregister. I need to be able to transport those changes
over to afni which lacks the nice interface freesurfer has f
Hi Leila,
we need a lot more information than this. Can you send an image showing
us what you mean? And what do you mean "the white matter seems ok"? Do
you mean the ?h.white surface looks correct?
cheers,
Bruce
On Fri, 15 Feb 2008, Leila BH
wrote:
Hello,
In some brains, the parcellation
Hello,
In some brains, the parcellation into 35 gyral based parcels is bad while
the white matter seems ok, do you know how to correct this? Or what could be
the raison
Thanks
Leila
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Dear FS experts, Dear Doug
We are still trying to do an average of 92 subjects, but failed due to the
known problem with make_average_subject. Is there any work around for that
problem or is it possible to do several averages (e.g., 3 times with 30
subjects) and average these three averages again?
Hmmm, that's a new one. If you send us the files:
mri/transforms/talairach.lta
mri/nu_noneck.mgz
mri/transforms/talairach_with_skull.lta
for that subject, and we'll take a look.
cheers,
Bruce
On Fri, 14 Feb 2008, Ryan Muetzel
wrote:
Hello,
I am getting some unusual error messages from r
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