all the values
> in a label. You can then compute whatever statistics you want.
>
> cheers,
> Bruce
>
>
> On Thu, 6 May 2004, George Papadimitriou
> wrote:
>
> > We would like to calculate the mean and std. deviation over a region of
> > interest using tkmed
We would like to calculate the mean and std. deviation over a region of
interest using tkmedit. The underlying image volume (on which the ROI is
delignated) is a scalar map. Kevin mentioned that there might be a tool
in the Freesurfer suite that will do that calculation.
I would really appreciat
Hi Kevin,
Is the development version of tkmedit still available? I need to use it,
because I can't load functional overlays using the regular version.
Even though I am using the use_dev alias, I can't seem to access it
(please look at example below).
[hereford:~] (nmr-std-env) use_dev
$Id: nmr
Hi all,
How can I compute the volume of a label created using tkmedit? Is there a
program to do this, or is it sufficient to count the number of points
listed in the label file and multiply by the volume per voxel? (And if so,
is the volume per voxel the voxel size for my original 40 slice axia
the labelvalue(s) you
list.
example:
mri_label_volume -s s126 -l s126hipps.log $SUBJECTS_DIR/s126/mri/aseg 17 53
will output the hippocampal volumes for subject s126.
--
brian t. quinn
On Tue, 28 Sep 2004, George Papadimitriou wrote:
Hi all,
How can I compute the volume of a label created using
I am trying to register a lowb volume to an average volume.
In this particular case, I'm trying to use tkregister2:
% tkregister2 --targ avg_000.bfloat --mov indivsubj_000.bfloat --reg \
register.dat
I am having a problem with the brightness of the TARG volume. It seems to
be set near ~1, and u
of thing.
doug
George Papadimitriou wrote:
I am trying to register a lowb volume to an average volume.
In this particular case, I'm trying to use tkregister2:
% tkregister2 --targ avg_000.bfloat --mov indivsubj_000.bfloat --reg \
register.dat
I am having a problem with the brightness of the TARG
00.bfloat ?
tnx,
D
On Wed, 27 Oct 2004, George Papadimitriou wrote:
Hi Dave,
Have you run into the issue described below?
Thanks a lot!
George P.
-- Forwarded message --
Date: Wed, 27 Oct 2004 11:53:07 -0400 (EDT)
From: George Papadimitriou <[EMAIL PROTECTED]>
To: [EMAIL PROTECT
COR is
an 8 bit format, so if you input is floating point and <1 it will be set to
0.
cheers,
Bruce
On Mon, 1 Nov 2004, George Papadimitriou wrote:
Hi all,
I'd really appreciate it if I can get some input on the issue below. I
need to come up with an answer this week.
I am having some
ok, just changing the output should do. I'll try it out. thanks.
George P.
On Mon, 1 Nov 2004, Bruce Fischl wrote:
what are you trying to do? Either use a different output format, or scale
your values up (e.g. in matlab)
Bruce
On Mon, 1 Nov 2004, George Papadimitriou wrote:
You are correc
your help resolving this issue.
Thanks,
George P.
On Mon, 1 Nov 2004, Doug Greve wrote:
OK, mri_vol2vol should give non-zero output now. I have not looked at it
closely enough to tell whether your actually doing what you want to do.
doug
George Papadimitriou wrote:
OK, I changed the permissions. I
ional info.
Thanks a lot!
George P.
On Mon, 1 Nov 2004, Doug Greve wrote:
That's what I though, but I still don't know what you're tring to do.
Are you trying to make the f volume overlay onto the s volume or the
other way around?
George Papadimitriou wrote:
Hi Doug,
I tried running mri_vol2
n Mon, 01 Nov 2004, George Papadimitriou shaped the electrons to say:
tkregister2 was used to overlay (i.e. co-register) volume s to volume f.
This actually succeeded; you can see results with:
% tkregister2 --targ f_000.bfloat --mov s_000.bfloat --reg \
register1.dat
Now, I want to actually create an
On Wed, 2 Mar 2005, Ruopeng Wang wrote:
Hi George,
I have no idea what tkmedit's label file is. I never used tkmedit for
real. But I remember some time ago, someone, maybe Judith, converted one
to Analyze format, with help from one of tkmedit's developers (maybe
Doug).
Ruopeng
On Wed
el lh-avg_central_sulcus.label
--temp f.img
--o lh-avg_central_sulcus.img
--temp is the template volume. The output volume
(lh-avg_central_sulcus.img) will have the same geometry as the template.
doug
George Papadimitriou wrote:
Hi guys,
I need to convert a label file into analyze, and see if I can impo
Mar 2005, Doug Greve wrote:
Can you send me command-lines and pointers to your data?
George Papadimitriou wrote:
Hi Doug,
Thanks a lot, this almost worked! I have one more issue.
The template volume is an axial volume. It was loaded in tkmedit, and the
ROI was drawn on its coronal view, and then
Hi all,
I am no longer able to load functional overlays in tkmedit. I am running
it on a RH7.3 machine. Back when we used to source from ~inverse I needed
to use the development version to load the overlays.
Here is what happens now:
- When I use the nmr standard version, it seems to load
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