10 Jul
2008
10 Jul
'08
9:35 p.m.
Dear users,
Thanks for reading!
I am a new user about freesurfer, after learning it a little while, I
have got some problems:
1. I have used "recon-all" successfully to process the sMRI data, which
generated the "lh.pial". And, I used "mris_convert lh.pial
lh.pial.asc",
get text mesh "lh.pial.asc". May I ask how can I view this with visible
mesh associated with the vertices and triangle?
2. I have read the Manual v 0.8. It seems all of the interface has not
supported in our new Freeserfer version...do you have some good
suggestion about the materials for beginner to learn?
I really appreciate your help!Looking forward to your reply!
Kind regards,
Jing
11 Jul
11 Jul
12:11 p.m.
Dear Jing,
Welcome to the ynic-users list. I'll try to answer your questions:
1) You need to extract the list of vertices and faces from the
freesurfer .asc file. You can then plot these in Matlab using the
patch() function, as in:
patch('Vertices',v,'Faces',f)
where v and f are the matrices containing the vertices (xyz coordinates)
and faces (lists of vertices) respectively. If you have trouble getting
the information from the .asc file into matlab I'd suggest contacting
the freesurfer mailing list as I am sure they will be able to help.
2) Can you provide more information on which manual you are referring to?
Padraig
Jing Kan wrote:
Dear users,
Thanks for reading!
I am a new user about freesurfer, after learning it a little while, I
have got some problems:
1. I have used "recon-all" successfully to process the sMRI data, which
generated the "lh.pial". And, I used "mris_convert lh.pial
lh.pial.asc",
get text mesh "lh.pial.asc". May I ask how can I view this with visible
mesh associated with the vertices and triangle?
2. I have read the Manual v 0.8. It seems all of the interface has not
supported in our new Freeserfer version...do you have some good
suggestion about the materials for beginner to learn?
I really appreciate your help!Looking forward to your reply!
Kind regards,
Jing
--
Pádraig Kitterick
Graduate Student
Department of Psychology
University of York
Heslington
York YO10 5DD
UK
Tel: +44 (0) 1904 43 3170
Email: p.kitterick(a)psych.york.ac.uk
16 Jul
16 Jul
12:42 p.m.
Pádraig Kitterick wrote:
Dear Jing,
Welcome to the ynic-users list. I'll try to answer your questions:
1) You need to extract the list of vertices and faces from the
freesurfer .asc file. You can then plot these in Matlab using the
patch() function, as in:
patch('Vertices',v,'Faces',f)
where v and f are the matrices containing the vertices (xyz coordinates)
and faces (lists of vertices) respectively. If you have trouble getting
the information from the .asc file into matlab I'd suggest contacting
the freesurfer mailing list as I am sure they will be able to help.
2) Can you provide more information on which manual you are referring to?
Padraig
Jing Kan wrote:
Hi Padraig,
Thanks for your suggestion which inspired me lot!!
Actually, I have got the ~.asc file successfully, and I have tried the
'patch' in matlab, but the problem is the image i got is always dark,
so I can just see the profile but not the detail image, i guess it
because i did not open the light ...do you think so?
Then, I tried a toolbox 'toolbox_graph' --'plot_mesh', the result seems
fine, but I found the problem is runing this programme is Matlab is very
slow especially visualising the 3D result...
And then, I tried some c++ file for mesh, the result, especially
rotating 3D image result is much faster. :-D
Anyway, thanks very much! I really appreciate your help!
Best regards, :-) :-) :-)
Jing
--
Jing Kan
CVPR (computer vision pattern recognition)-Group
Department of Computer Science
University of York
Heslington
York, YO10 5DD
Office: CS210E-38
Tel: +44 1904 432709
Fax: +44 1904 432767
Dear users,
Thanks for reading!
I am a new user about freesurfer, after learning it a little while, I
have got some problems:
1. I have used "recon-all" successfully to process the sMRI data, which
generated the "lh.pial". And, I used "mris_convert lh.pial
lh.pial.asc",
get text mesh "lh.pial.asc". May I ask how can I view this with visible
mesh associated with the vertices and triangle?
2. I have read the Manual v 0.8. It seems all of the interface has not
supported in our new Freeserfer version...do you have some good
suggestion about the materials for beginner to learn?
I really appreciate your help!Looking forward to your reply!
Kind regards,
Jing
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days inactive
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2 comments
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participants (2)
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Jing Kan -
Pádraig Kitterick