Thanks a lot ! It just stopped woking at the last line and it didn't
generate the results ,so I didn't konw how to deal whit it .
wrz891...@163.com
From: Douglas N Greve
Date: 2014-10-25 00:32
To: freesurfer
Subject: Re: [Freesurfer] mri_glmfit-sim error
what is the error? I did not see
Maybe it stands for inferior lateral ventricle.
On Fri, Oct 24, 2014 at 5:53 PM, Mahmoudi, Fariborz
wrote:
> Hi all,
>
> Who knows what is exactly meaning of "inf-lat-vent"?
>
> Thanks,
> Fari
>
> ___
> Freesurfer mailing list
> Freesurfer@nmr.mgh.harv
it's the temporal horn of the lateral ventricles (read it as "inferior
lateral ventricle")
cheers
Bruce
On Fri, 24 Oct 2014, Mahmoudi, Fariborz wrote:
> Hi all,
>
> Who knows what is exactly meaning of "inf-lat-vent"?
>
> Thanks,
> Fari
>
> ___
> Frees
Hi all,
Who knows what is exactly meaning of "inf-lat-vent"?
Thanks,
Fari
___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
The information in this e-mail is intended only for the
Hi Janosh,
cross sectional processing should be OK, but longitudinal is more
difficult. The subject id is passed to the base and stored there (both
in a text file and also in the filename of the corresponding
transformations from base to each time point). Also the long directory
filename is ma
I think it should be ok as far as FreeSurfer goes. Anonymization is
another story.
doug
On 10/24/2014 01:31 PM, Janosch Linkersdörfer wrote:
> Hi all,
>
> I wonder whether I can rename subjects after processing has been done and do
> further processing or stats on them without running in any prob
Hi all,
I wonder whether I can rename subjects after processing has been done and do
further processing or stats on them without running in any problems.
>From reading
>http://www.mail-archive.com/freesurfer%40nmr.mgh.harvard.edu/msg26244.html, it
>seems as if the name of the subject folder un
Dear Freesurfers,
Does anyone know the exact date of the upcoming Freesurfer course in Sao
Paolo, Brazil? I know that it is too early, but we need the date for a
travel grant application. Thank you for your help in advance!
Cheers,
Andrea
--
*Andrea Horvath M.D.*
PhD Fellow
Diagnostic Centr
Dear Martin,
Thank you for your advice. Actually I can overlay both outputs from FSL and
FreeSurfer on freeview without any extra work or any change but I was
wondering how to do it in FSLView.
Best,
Mahmoud
On Fri, Oct 24, 2014 at 12:10 PM, Martin Reuter wrote:
> Hi Mahmoud,
>
> I haven't do
That mri_convert command only changes the file from mgz to nii. If you
want to resample it into a new space, then use mri_vol2vol using --regheader
doug
On 10/24/2014 11:34 AM, Mahmoud wrote:
> Dear all,
>
> I have a set of T1-MPRAGE images and and conducted the following steps:
>
> 1- Converted
As far as I can tell they look right to me. Good job!
On 10/24/2014 01:23 AM, Bronwyn Overs wrote:
> Dear Freesurfer Mailing List,
>
> I wish to run a GLM in freesurfer with 3 categorical variables
> (haplotype-2levels, gender-2levels, group-2levels), and 1 continuous
> variables (age). Unfortu
what is the error? I did not see anything in the log file.
On 10/24/2014 04:18 AM, wrz891...@163.com wrote:
>
> Dear Freesurfer Experts,
> I'm a new freesurfer, it comes some errors whendoing mri_glmfit-sim
> analysis. I don't konw what is wrong about it ,it just never work when
> # doning at mr
Hi Mahmoud,
I haven't done this so maybe it's wrong, other should know better.
freesurfer uses 256 cube resolution for their voxel space. RAS
coordinates are not changed and everything is stored in file headers.
Unless bet changes header information, the images should still be on top
of each
Dear Anastasia,
I am trying to visualize the tract p-values along one pathway as shown in the
tutorial.http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/TraculaStatistics
I have implemented the p-values into a text file but I am uncertain of what the
settings for the heat scale thresholds ough
Dear all,
I have a set of T1-MPRAGE images and and conducted the following steps:
1- Converted the DICOM images to SPM8 (3D nifti nii) by dcm2niigui.exe
2- Used the following line to segment images by FreeSurfer:
recon-all -i /xxx/IM-0009-0001.dcm -subject TEST -all
recon-all -base TESTBASE -tp
Thanks, Martin.
Manabu
2014-10-24 17:00 GMT+02:00 Martin Reuter :
> Hi Manabu,
>
> yes, you can run the post-processing (lme analysis) on the 5.1 data. The
> matlab tools should work, if any command line tool fails (e.g. stacking
> based on longitudinal qdec table), let us know and we'll send
Hi Manabu,
yes, you can run the post-processing (lme analysis) on the 5.1 data. The
matlab tools should work, if any command line tool fails (e.g. stacking
based on longitudinal qdec table), let us know and we'll send an updated
script for that (or you copy it from 5.3 if you have that availab
Hi experts,
I'm planning to apply linear mixed effects models to my longitudinal MRI
dataset.
I found the LME Matlab tools are not included in FreeSurfer ver. 5.1. Is it
possible
to use the standalone copy of the tools linked in the website with FS ver.
5.1?
Do I need to run an extra command to m
Dear Freesurfer Experts,
I'm a new freesurfer , it comes some errors when doing
mri_glmfit-sim analysis. I don't konw what is wrong about it ,it just never
work when doning at mri_glmfit-sim ,and my
commands as follwing.
mris_preproc --fsgd advsnc.fsgd \
--cache-in t
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