Bruce, and other experts, thank you for your time :)
I'm now uploading the data folder (before cp and after cp) to the freesurfer incoming directory.
We obtained the 3D-SPGR axial images using 3T GE system which have 8HRBRAIN receiving coil.
Data acquisition matrix is 320-by192, FOV is 200-by-200.
Other parameters;
slice thickness =1.5
TR=5.924
TE=1.472
Flip angle: 20
Inversion Time=400
Imaging Frequency 127.88
Percent Phase FOV =80
Sincerely,
EK
2012/10/11 Bruce Fischl
<fischl@nmr.mgh.harvard.edu>
Hi EK
that is a really low-contrast image. Can you tell me about the acquisition parameters and resolution? Also, I can't diagnose your problem from just the volume I'll need the entire (tarred and gzipped) subject directory. Finally, please cc the list on these emails so that others can help you!
Bruce
On Thu, 11 Oct 2012, EK Kim wrote:
I uploaded the files to transfer/incoming folder.
Best,
EK
2012/10/11 Bruce Fischl <fischl@nmr.mgh.harvard.edu>
If you upload the subject to our FTP site I will take a look
Bruce
On Oct 10, 2012, at 9:29 PM, EK Kim <ksea03@gmail.com> wrote:
Thank you for your answer.
I'm not sure I understand your question right,
but I just processed the file using following procedures.
1. recon-all -autorecon1 -nuintensitycor-3T (because mine was
3T)
2. skullstripping brain mask using gcuts
3. adding control points (only on the left hemisphere)
4. recon-all -autorecon2-cp
and this figure was made by a commnad line, [tkmedit wm.mgz -aux
brain.mgz -surfs].
Best,
EK.
2012/10/10 Bruce Fischl <fischl@nmr.mgh.harvard.edu>
what was the name of the file that you transferred?
On Wed, 10 Oct 2012, EK Kim wrote:
I already uploaded this problem 2 days
ago, reprocessing the subject to make
sure about control points.
However when I added the control points
to the left hemisphere,
the right hemisphere surface was changed
severely.
I used the command line, recon-all
-autorecon2-cp -s subjectID.
Could you tell me why does it occur and
how to deal with it?
Best,
EK
The information in this e-mail is intended only for the
person to whom it is
addressed. If you believe this e-mail was sent to you in
error and the e-mail
contains patient information, please contact the Partners
Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was
sent to you in error
but does not contain patient information, please contact
the sender and properly
dispose of the e-mail.
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer