know,
Marie
On Oct 28, 2013, at 3:38 AM, Linn Mittlestein linnmit...@gmail.com
wrote:
Dear Marie,
Thank you, I use bash and changed my .bashrc and this worked, I
previously had used wrong syntax. Thank you very much for your help.
However, I now recieve another error and do not know
been modified, then the getmatlab command from
FreeSurfer should give you the correct location.
Best,
Marie
On Oct 23, 2013, at 12:23 AM, Linn Mittlestein linnmit...@gmail.com
wrote:
Hi, thank you. I am using Linux. I not sure where to change path, ie
which file this should be done
://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg25017.html
http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg26909.html
http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg27290.html
Let me know how it goes,
Marie
On Oct 22, 2013, at 2:41 AM, Linn Mittlestein
From: Linn Mittlestein linnmit...@gmail.comDate: Fri, Oct 18, 2013 at
1:30 PM
Subject: LGI path problem
To: freesurfer@nmr.mgh.harvard.edu
Hi,
I am trying to compute lgi measures, and I think my problem lies in the
fact that the matlab path is not set correctly; it is calling an older
version
Hi,
I am trying to compute lgi measures, and I think my problem lies in the
fact that the matlab path is not set correctly; it is calling an older
version of matlab however I need it to point to matlab2013b. I have tried
numerous things like changing the startup.m file, the .bashrc file and
aparc.a2009s
Run it with --help to see all the options.
doug
On 08/06/2013 08:24 AM, Linn Mittlestein wrote:
Hi all,
I bit confused about how to create labels from annotation2label
command to create DLPFC. I want make DLPFC label by merging
G_frontal_middle.label, S_frontal_inferior.label
Hi all,
I bit confused about how to create labels from annotation2label command to
create DLPFC. I want make DLPFC label by merging G_frontal_middle.label,
S_frontal_inferior.label and S_frontal_middle.label (available in the 2009
atlas). But I only can get annotation2label to work with the other
Hi,
I just mean that it is not an option in the drop down menu at all? And I
thought it would be?
On Fri, Jul 26, 2013 at 6:19 PM, Douglas Greve gr...@nmr.mgh.harvard.eduwrote:
Hi Linn, what do you mean that you cannot select it? Is it grayed out?
doug
On 7/26/13 4:20 AM, Linn
Dear freesurfer experts,
I am currently do group analysis in qdec, and I canot select jacobian white
from the drop down menu, I thought this would be an option? Do I do have
additional steps to get these values?
Kind Regards,
Linn
___
Freesurfer
Hello,
I wondering if possible using fsgd files to do group analysis with two
factors (one with 3 levels, one with 2 levels), with one covariate. On fsgd
example list I cannot find this example?
Kind Regards,
Linn
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are running in?
cheers
Bruce
On Mon, 25 Mar 2013, Linn Mittlestein wrote:
Dear Freesurfer experts,
I have a question about trying to extract statistics from merged labels
using mris_anatomical_stats. I have used
the mri_annotation2label, and then the mri_merge label, however now when
trying
Dear Freesurfer experts,
I have a question about trying to extract statistics from merged labels
using mris_anatomical_stats. I have used the mri_annotation2label, and then
the mri_merge label, however now when trying to do mris_anatomical stats, I
get the error ; could not read input volume, eg
Dear list,
I was wondering whether you have any suggestions on how to optimize
accuracy of the Freesurfer output (both cortical and subcortical) in images
aquired on lower scanning resolutions than 3 T (for examle 1 T)?
Kind Regards, Linn
___
Dear Freesurfer experts,
I have a question about qdec...as it is supposed to be doing whole brain
cortical analyses, how come one first has to generate statistical tables,
and chose thicknesses of different regions from these tables? Is this just
an option, rather than being necessary for qdec?
Dear freesurfer experts,
i have a question regarding making my own average. I received this message
Tue Feb 12 10:54:34 GMT 2013
make_average_volume done
However, the stats file in the average subject is empty, and the tmp
folder, but the other folders are not empty. Is this normal? Does the
Dear Bruce,
Thank you for your reply
Regards, Linn
On Tue, Feb 12, 2013 at 4:14 PM, Bruce Fischl fis...@nmr.mgh.harvard.eduwrote:
Hi Linn
that sounds normal to me
cheers
Bruce
On Tue, 12 Feb 2013, Linn Mittlestein wrote:
Dear freesurfer experts,
i have a question regarding making
Dear freesurfer experts,
I have a question. I am trying to complete the longitudinal tutorial, and
in freeview tutorial it states:
In order to analyze your longitudinal data, you have different options.
You could, e.g., open the stats text files in each
tpN.long.templateID/stats/ dir,
Dear freesurfer experts,
I have a question regarding white matter hyperintensities (ie values above
110)..if these are included in the brainmask accurately, ie as white matter
when it is indeed white matter, does hyperintensities still cause problems,
and if so why?
Regards Linn
Hi,
Is there a command that can be used just to extract just the intracranial
volume of all participants?
Many kind regards
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Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
The
is estimated as part of the recon-all process and ends up in one
of the stats files. Is that good enough?
Bruce
On Tue, 5 Feb 2013, Linn Mittlestein wrote:
Hi,
Is there a command that can be used just to extract just the intracranial
volume of all participants?
Many kind regards
thank you. Sorry but is there documentation on the wiki/anywhere on how to
create an own average?
On Fri, Feb 1, 2013 at 6:40 PM, Douglas N Greve
gr...@nmr.mgh.harvard.eduwrote:
yes, unless you make your own average
doug
On 02/01/2013 09:42 AM, Linn Mittlestein wrote:
Dear Freesurfer
Dear Freesurfer experts,
I just tried creating the -base for longitudinal processing on two time
points using
recon-all -base templateID -tp tp1id -tp tp2id ... -all
After doing this, I received no error messages and a third folder
named after the template name I had given
it it was present
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