Dear colleagesI am trying to convert my dicom files to .mgz from Freesurfer by
using the mri_convert command, but it provides me the following
error:edward-virtual-machine:~/freesurfer/subjects/Artists/Controls/C1>
mri_convert /home/edward/freesurfer/subjects/Artists/Controls/C1/mprage
grappa2x
Dear FreeSurfer Experts,
I have two questions, which you can hopefully answer to:
1)
I calculated several analyses with LGI as my dependent variable, resulting in
several significant clusters.
Now, I would like to extract the individual LGI value at the maximum vertex of
each significant cluste
Hi Edward
it's because there is a space in the name of your file. This always
complicates things in unix and you are better off avoiding it.
cheers
Bruce
On Wed, 3 Feb 2016, Edward Su wrote:
>
> Dear colleages
>
> I am trying to convert my dicom files to .mgz from Freesurfer by using the
Dear Eugenio,
I am writing because I am getting a mkdir error when I try to run the
FreeSurfer 6.0 hippocampal subfields segmentation. I tried moving my
installation of freesurfer to a local directory where I have write
permission and I also made sure I had write permission in my subject's
direct
you have to tell it what you want the output to be, eg,
mri_convert file.dcm output.mgz
On 2/3/16 4:07 AM, Edward Su wrote:
Dear colleages
I am trying to convert my dicom files to .mgz from Freesurfer by using the
mri_convert command, but it provides me the following error:
edward-virtual-mach
Hi Anastasia:
I am working on a set of DTI data that were obtained at the Martinos
center. The data is in a single nii.gz file. The BVECS and BVALS files are
also embedded in this. Could you please advice me how do I code this in the
DMRIRC file?
Should I convert the nii.gz file into Analyze to g
Dear freesurefr experts,
Hope this mail finds you all doing well. I want to calculate hippocampal
subfield volume using T2w mages. Is the recon-all command same as we do for
the T1images (recon-all -i input to T1.nii.gz -s 001 -all)?
I was not able to understand the recon-all command for the T2w
Dear FreeSurfers,
It is our pleasure to welcome you the FreeSurfer course organized in Tours,
Loire Valley, France, 2016 26-27th may.
This event is coorganized by the brain and imaging laboratory, INSERM
U930-Université François Rabelais of Tours (France) and by the Martinos Center
for Biomed
Hi Alan - A nifti file with the gradient tables and b-values embedded? All
freesurfer programs can handle nifti volumes, compressed (.nii.gz) or not
(.nii). You can pass those volumes to TRACULA, and pass the gradient table
and b-value table as separate files.
Run "mri_convert --help" to see
Freesurfer team,
Hi. Our lab tried to unpack DICOM files using both freesurfer v4.5.0 and
v5.3.0.
The command line is:
unpacksdcmdir -src $DATA_DIR/$SUBJECT/DICOM/day1 -targ
$DATA_DIR/$SUBJECT/bold_decode -fsfast -seqcfg $LOG_DIR/$UNPACK
And I get the error message:
$Id: unpacksdcmdir,v 1.19.2
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