 |
 |
Paul,Is it correct to key robustfov -i "file name" ? however, it just showsFinal FOV is:
0.000000 464.000000 154.000000 340.000000 0.000000 176.000000
and i check the file with fslview, the neck is not removed. I thought i must miss some steps.
thanks!
hoifong
On Wed, Aug 12, 2015 at 11:23 PM, paul mccarthy <[log in to unmask]> wrote:
Hi Hoifong,
BET can have trouble with images which have large amounts of neck - try using the 'robustfov' command to remove the neck area, and re-running BET.
Cheers,
Paul
On 12 August 2015 at 16:09, Chan Hoi Fong <[log in to unmask]> wrote:
I have upload the file to the Google drive, thanks!!
--
On Wed, Aug 12, 2015 at 8:58 PM, Mark Jenkinson <[log in to unmask]> wrote:
Hi,
We recommend uploading illustrative pictures (not nifti files) to a third-party website (e.g. a photo sharing site) and including the link in emails to the list if you want to demonstrate something. The limit is imposed to prevent people's inboxes being overwhelmed by people posting nifti files or other large attachments.
I'm afraid I can't really comment on how important the brain extraction errors are without seeing any images though. What really matters is whether anything in the extra-brain regions gets segmented as grey matter or not.
All the best,Mark
From: FSL - FMRIB's Software Library <[log in to unmask]> on behalf of "subscribe FSL Hoi Fong, Chan" <[log in to unmask]>
Reply-To: FSL - FMRIB's Software Library <[log in to unmask]>
Date: Wednesday, 12 August 2015 02:11
To: "[log in to unmask]" <[log in to unmask]>
Subject: [FSL] extra-Brain tissue "circled" in BET
Dear Experts,I am doing VBM analysis currently . I have run fslreorient2std to reorient all sample. Then i run fslvbm_1_bet –N. However, there are several sampled showing much more extra-brain area circled as the post BET brain area. Will it affect the further analysis? ( i could not upload the image file since it is too large)Thanks!!hoifong
Hoi Fong, Chan, MDEn Chu Kong hospital, Department of neurologyNational Taiwan University , Department of anatomy and cell biologyTaipei
--
Hoi Fong, Chan, MDEn Chu Kong hospital, Department of neurologyNational Taiwan University , Department of anatomy and cell biologyTaipei
