Hi Alex,
I don't know what "var2" means. Spearman cor is nonparametric based on
rank. It's more closely related to Pearson, and would be the same as a
Pearson if you only had one regressor. The sign indicates the direction
of the contrast -- red for positive and blue for neg. You're already
ac
You can actually use any format for beta (or any other output). I
usually use mgh. To view it on the surface, you can run:
tksurfer average7 lh inflated -overlay beta.mgh (or beta.bhdr)
What version are you using? This should work with any from the last 6 mo.
dioug
Marie Schaer wrote:
He
Hi Antao,
the vertices are distributed at approximately even 1mm intervals over the
surface.
cheers,
Bruce
On Mon, 31 Oct 2005, Antao Du wrote:
Hi,
mris_gm does the group compariosn of cortical thickness vertex by vertex (to
my understanding). I have a question, What is the size of vertex
Hi,
mris_gm does the group compariosn of cortical thickness vertex by vertex (to
my understanding). I have a question, What is the size of vertex during the
test? is it voxel by voxel?
Thanks,
Antao
___
Freesurfer mailing list
Freesurfer@nmr.mgh.harva
It means that you ran the initial estimation with one design matrix
but are trying to test the contrast with another. Make sure the fsgdf
and the dods/doss are the same as in the first call to mris_glm.
On Thu, 20 Oct 2005 [EMAIL PROTECTED] wrote:
Hi,
I processed all data in older version
: Freesurfer Mailing List
Subject:Re: [Freesurfer] mris_glm analysis
Aaron,
Hi, can you tell me the version of make_average_surface you are running?
Type:
make_average_surface --version
Just in case yours in out-of-date, I've attached the latest
make_average_surface script,
revisited**
Segmentation fault
-Original Message-
From: Nick Schmansky [mailto:[EMAIL PROTECTED]
Sent: Wed 7/27/2005 5:33 AM
To: Goldman, Aaron (NIH/NIMH)
Cc: Freesurfer Mailing List
Subject:Re: [Freesurfer] mris_glm analysis
Aaron,
Hi
Aaron,
Hi, can you tell me the version of make_average_surface you are running?
Type:
make_average_surface --version
Just in case yours in out-of-date, I've attached the latest
make_average_surface script, which should not have the SUBJECTS bug that
you describe.
The file is gzipped, so do the
a/flanders
--
recon-all exited with errors at Tue Jun 28 14:41:03 EST 2005
-Original Message-
From: Nick Schmansky [mailto:[EMAIL PROTECTED]
Sent: Wed 6/29/2005 2:26 AM
To: Fornito, Alexander
Cc: Itamar Kahn; Freesurfer Mailing List
Subject: RE: [Freesurfer] mri
EMAIL PROTECTED]
Sent: Wed 6/29/2005 2:26 AM
To: Fornito, Alexander
Cc: Itamar Kahn; Freesurfer Mailing List
Subject: RE: [Freesurfer] mris_glm
Alex,
I'm trying to track down the source of the segmentation fault. In the
meantime, can you re-run the script with the parameter -
...
> reading vertex positions from orig...
> processing subject s1000186...
> The following must be revisited**
> Segmentation fault
>
>
>
> -Original Message-
> From: Itamar Kahn [mailto:[EMAIL PROTECTED]
> Sent: Tue 6/28/2005 9
ing subject s1000186...
The following must be revisited**
Segmentation fault
-Original Message-
From: Itamar Kahn [mailto:[EMAIL PROTECTED]
Sent: Tue 6/28/2005 9:51 AM
To: Fornito, Alexander
Cc: Freesurfer Mailing List
Subject: Re: [Free
From:Nick Schmansky [mailto:[EMAIL PROTECTED]
Sent:Tue 6/21/2005 11:00 PM
To:Fornito, Alexander
Cc:Freesurfer Mailing List; Bruce Fischl
Subject: RE: [Freesurfer] mris_glm
Alex,
Attached is the make_average_surface script. Copy it to the
freesurfer/bin directory, and be sur
EMAIL PROTECTED]
Sent: Tue 6/21/2005 11:00 PM
To: Fornito, Alexander
Cc: Freesurfer Mailing List; Bruce Fischl
Subject: RE: [Freesurfer] mris_glm
Alex,
Attached is the make_average_surface script. Copy it to the
freesurfer/bin directory, and be sure to make it executable (run '
Fantastic. I really appreciate all your help!!
-Original Message-
From: Nick Schmansky [mailto:[EMAIL PROTECTED]
Sent: Tuesday, June 21, 2005 11:00 PM
To: Fornito, Alexander
Cc: Freesurfer Mailing List; Bruce Fischl
Subject: RE: [Freesurfer] mris_glm
Alex,
Attached is the
e in any of the freesurfer directories.
> > Am I missing something?
> > Thanks again,
> > Alex
> >
> > -Original Message-
> > From: Doug Greve [mailto:[EMAIL PROTECTED]
> > Sent: Tuesday, June 21, 2005 4:11 PM
> > To: Fornito, Alexander
> > Cc: f
ECTED]
Sent: Tuesday, June 21, 2005 4:11 PM
To: Fornito, Alexander
Cc: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] mris_glm
You can run with just the design matrix, but you won't be able to use
the cool fsgdf stuff in tksurfer (Load->FSGDF). The fsgdf is a way to
specify h
g?
Thanks again,
Alex
-Original Message-
From: Doug Greve [mailto:[EMAIL PROTECTED]
Sent: Tuesday, June 21, 2005 4:11 PM
To: Fornito, Alexander
Cc: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] mris_glm
You can run with just the design matrix, but you won't be able t
You can run with just the design matrix, but you won't be able to use
the cool fsgdf stuff in tksurfer (Load->FSGDF). The fsgdf is a way to
specify how to build the des mtx. The fsgdf keeps track of what the
regressors mean (eg, Age, Class, IQ, etc). When you save the
preprocessed data with --y,
Can you send me the directory that you are running it from? Also, what
does it print out? Also, please send the log file (it is in the log
directory).
doug
On Fri, 1 Oct 2004, Trinity Urban wrote:
I'm trying to use mris_glm-ses for the first time but something is going
wrong. It seems to run ok
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