13 Oct
2012
13 Oct
'12
4:07 p.m.
how long is the scan? Probably pretty short with a TR that short. It's *very* low CNR so it's going to be tough to get much out of it
On Sat, 13 Oct 2012, EK Kim wrote:
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