Hello FS list subscribers,
Is there a way to manually feed FS with NIfTI-1 qform or sform information?
Or correctly add this information to the original .nii files? My sense of
the problem is that there is a problem with the header information in my
.nii files and FS cannot tell what is anterior,
Hi Freesurfer Community,
I am running mri_cvs_register for the spatial normalization and it seems to
work very nicely on my set of DTI data in subjects with substantial
atrophy.
However, I can't seem to find the file
combined_tocvs_avg35_elreg_afteraseg-norm.m3z,
however, I have
breaksw
breaksw
end
end
while ( $#argv != 0 )
while ( 5 != 0 )
set flag = $argv[1] ; shift ;
set flag = --i
shift
switch ( $flag )
switch ( --i )
if ( $#argv < 1 ) goto arg1err ;
if ( 4 < 1 ) goto arg1err
set InputVol = "$argv[1]" ; shift ;
set InputVol = DTI.nii.gz
shift
if ( ! -e
Dear guys,
Is there a file of "FreeSurferColorLUT.txt" available in the Freesurfer
folders, or should I copy/paste the texts to a .txt file directly from the
FS website?
Also, is there a way to transform this LUT table to enable it to be loaded
into ImageJ, or can it work directly well in
what do you mean by "adding" an oblique angle? If you mean acquiring the
data obliquely you should be fine as long as the voxels are close to 1mm
isotropic.
cheers
Bruce
On Sun, 20 Mar 2016, Dr Sampada Sinha wrote:
> Dear freesurfer experts,
> Does adding an oblique angle during coronal or
Hi Jacky
the first step is to look at the output of the processing (if it
finished) and see if it looks good. If so, you don't have to worry about
it. The very large defects are difficult to correct (or take
prohibitively long), so should be checked, but they certainly can be
corrected
Dear freesurfer experts,
Does adding an oblique angle during coronal or axial acquisitions of T1w
images lead to topographical errors during mri_fix_topology process?
Thanks and regards,
Sampada
--
Sampada Sinha
___
Freesurfer mailing list
Dear freesurfer experts,
I have encountered problems running recon-all on some subjects where the
processes were stuck at "CORRECTING DEFECT 5 (vertices=14049, convex
hull=3020) XL defect detected...".
I have read from the mailing list that this is a large defect to be
manually corrected or
p.s. or you can measure the distance in a sagittal plane using the
measure tool in freeview (which Ruopeng just reminded me about)
On Wed, 16
Mar 2016, Heather Acuff wrote:
Good morning,
I apologize if this email was sent out twice. I would like to
use anterior to posterior length as a
Hi Ji
that does sound strange! Can you tar and gzip the subject and upload it to
our website so I can see if I can replicate the problem?
cheers
Bruce
On Thu, 17 Mar 2016, Ji Won Bang wrote:
> Dear. Freesurfer experts.
>
> Hi.
>
> I'm having a problem with mris_flatten (version 5.3.0)
>
>
yes, although the hippocampal stuff hasn't changed I don't think
(Eugenio: is that correct)?
On Wed, 16 Mar 2016, Alan Francis wrote:
Bruce, with Eugenio's guidance, I downloaded 6.0 beta a few months ago and
ran the HSF method successfully. Have they retracted that version?
best,
Alan
On
Hi FS experts,
I am trying to use the folowing command:
mri_fwhm --i lh.mgh --auto-mask 0.2 --sum lh.fwhm5.sum --fwhm 5 --o lh_5mm.mgh
I keep receiving an error message as follow:
voxelvolume 1 mm3
Computing mask, relative threshold = 0.2, gmean = 0.501858, absthresh = 0.100372
Search
12 matches
Mail list logo
