are they different time points or from the same session? What are you
trying to achieve?
On Sat, 1 Dec 2012, Assaf B. Spanier wrote:
This is exactly the command I've used.
However, as I mentioned my subject has about six or seven T1-MRI images and
I have added all of them via the ""recon-all -i image1 -i image2 etc'"
command. I can even see those images in the "mri/orig" directory. see:
~~~~~~~~~~
| |-- orig
| | |-- 001-iscale.txt
| | |-- 001.lta
| | |-- 001.mgz
| | |-- 002-iscale.txt
| | |-- 002.lta
| | |-- 002.mgz
| | |-- 003-iscale.txt
| | |-- 003.lta
| | |-- 003.mgz
| | |-- 004-iscale.txt
| | |-- 004.lta
| | `-- 004.mgz
...
...
~~~~~~~~~~
However, I'm not sure how can I used tkmedit to inspect the segmentation of
those different MRI images ?
[Hope my question is more clear now]
On Sat, Dec 1, 2012 at 10:31 PM, Bruce Fischl <[email protected]>
wrote:
what different brain images do you mean? You can view them with
the surfaces via:
tkmedit <subject name> norm.mgz lh.white -segmentation
aparc+aseg.mgz
or
tkmedit <subject name> norm.mgz lh.white -segmentation
aparc2009s+aseg.mgz
the tools will be part of FS 5.2 when it comes out in the next
month or so. If you really need it before then Nick can get you
a beta.
cheers
Bruce
On Sat, 1 Dec 2012, Assaf B. Spanier wrote:
Many thanks for the quick response - I would take a
look on your
suggestion!
How about my first question ? About viewing the
segmentation results of my
first trial ( without the Flair images)
[Please forgive my English :) ]
On Sat, Dec 1, 2012 at 9:53 PM, Bruce Fischl
<[email protected]>
wrote:
Hi Spanier
definitely don't invoke recon-all with the
FLAIR image. We have
some tools in 5.2 for this, but you would call
it as a
postprocessing step with a different command
line in any case.
Instead, you can use bbregister to register
the flair to the
surfaces and resample it.
cheers
Bruce
On Sat, 1 Dec 2012, Assaf B. Spanier wrote:
Hi@all,
I have a dataset of several MRI T1
images and one
Flair. All images of the
same subject and were taken in the same
session. My
goal is to register and
segment all those MRI images.
= A =
In my first try I have used, "recon-all
-i image1 -i
image2 etc'" for all
T1 images (here, I didn't use the Flair
images ) .
Follow this, I used the
"recon-all -all" command. (For about two
days...)
Here come Question 1: After all this
process, I
didn't completely follow the
results I got... As I have noticed that
I have only
one segmentation file
(aparc.a2009s+aseg.mgz) ? How can I see
the
segmentation result
with tkmedit in the different brain
images ?
= B =
As I would like the neuroanatomical
labels to be
inspected for accuracy by a
physician. My physician asks to see the
segmentation
result on top of the
Flair images (saying it easier for him
to do so on
Flair images)
So I've used the "recon-all -i image1 -i
image2
etc'" command again
but this time I've also included the
Flair image.
Here come Question 2: However, this
time,
unfortunately, the "recon-all -i
image1 -i image2 etc'" , failed,
saying that:
~~~~~
images have different voxel sizes.
Currently not
supported, maybe first
make conform? Debug info: size(1) =
0.5078, 0.5078,
5.5 size(0) = 0.51,
0.51, 5.5
~~~~~
Is there something I can do to fix this
?
Thanks for everyone involved in this
great project!
Highly appreciate your time and efforts.
Best,
Spanier
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--
- Assaf
We are all - others.
--
- Assaf
We are all - others.
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