Dear Douglas:
And how can I view (render) in 3D the hippocampus that I got frok aseg.mgz with the mri_binarize command ?...
Sincerely,
Gonzalo Rojas Costa
mri_binarize with --match 17 or --match 53 will do it
doug
Guang Zeng wrote:
Hi, there,
I'd like to extract the left and right hippocampus from aseg.mgz, so basically what I want is a volume where left hippocampus have value (or label) 17 and right hippocampus have value (or label) 53, all the other place are zero.
How can I do it? Using mri_threshold or mri_label2vol?
Thanks a lot!
Guang
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you can use mri_tessellate to create a mesh, then tksurfer will visualize it On Thu, 17 Sep 2009, Gonzalo Rojas Costa wrote:
Dear Douglas:
And how can I view (render) in 3D the hippocampus that I got frok aseg.mgz with the mri_binarize command ?...
Sincerely,
Gonzalo Rojas Costa
mri_binarize with --match 17 or --match 53 will do it
doug
Guang Zeng wrote:
Hi, there,
I'd like to extract the left and right hippocampus from aseg.mgz, so basically what I want is a volume where left hippocampus have value (or label) 17 and right hippocampus have value (or label) 53, all the other place are zero.
How can I do it? Using mri_threshold or mri_label2vol?
Thanks a lot!
Guang
Hotmail: Free, trusted and rich email service. Get it now.
http://clk.atdmt.com/GBL/go/171222984/direct/01/
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
In order to help us help you, please follow the steps in: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
I loaded the left and right hippocampus mesh using tksurfer, it works, Thanks!
If I want to paint left hippocampus as yellow and right hippocampus as green after I load them using tksurfer, how could I do it?
Thanks! Guang
Date: Thu, 17 Sep 2009 07:24:11 -0400 From: fischl@nmr.mgh.harvard.edu To: grojas@computer.org CC: freesurfer@nmr.mgh.harvard.edu; greve@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] how to extract segmented hippocampus
you can use mri_tessellate to create a mesh, then tksurfer will visualize it On Thu, 17 Sep 2009, Gonzalo Rojas Costa wrote:
Dear Douglas:
And how can I view (render) in 3D the hippocampus that I got frok aseg.mgz with the mri_binarize command ?...
Sincerely,
Gonzalo Rojas Costa
mri_binarize with --match 17 or --match 53 will do it
doug
Guang Zeng wrote:
Hi, there,
I'd like to extract the left and right hippocampus from aseg.mgz, so basically what I want is a volume where left hippocampus have value (or label) 17 and right hippocampus have value (or label) 53, all the other place are zero.
How can I do it? Using mri_threshold or mri_label2vol?
Thanks a lot!
Guang
Hotmail: Free, trusted and rich email service. Get it now.
http://clk.atdmt.com/GBL/go/171222984/direct/01/
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
In order to help us help you, please follow the steps in: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
_________________________________________________________________ Lauren found her dream laptop. Find the PC that’s right for you. http://www.microsoft.com/windows/choosepc/?ocid=ftp_val_wl_290
photoshop? Sorry, I don't think there's an easy way to do it in tksurfer without making your own curv-format file. You could do it in freeview though if you want to mess around with it.
cheers Bruce On Wed, 23 Sep 2009, Guang Zeng wrote:
I loaded the left and right hippocampus mesh using tksurfer, it works, Thanks!
If I want to paint left hippocampus as yellow and right hippocampus as green after I load them using tksurfer, how could I do it?
Thanks! Guang
Date: Thu, 17 Sep 2009 07:24:11 -0400 From: fischl@nmr.mgh.harvard.edu To: grojas@computer.org CC: freesurfer@nmr.mgh.harvard.edu; greve@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] how to extract segmented hippocampus
you can use mri_tessellate to create a mesh, then tksurfer will visualize it On Thu, 17 Sep 2009, Gonzalo Rojas Costa wrote:
Dear Douglas:
And how can I view (render) in 3D the hippocampus that I got frok aseg.mgz with the mri_binarize command ?...
Sincerely,
Gonzalo Rojas Costa
mri_binarize with --match 17 or --match 53 will do it
doug
Guang Zeng wrote:
Hi, there,
I'd like to extract the left and right hippocampus from aseg.mgz, so basically what I want is a volume where left hippocampus have value (or label) 17 and right hippocampus have value (or label) 53, all the other place are zero.
How can I do it? Using mri_threshold or mri_label2vol?
Thanks a lot!
Guang
Hotmail: Free, trusted and rich email service. Get it now.
http://clk.atdmt.com/GBL/go/171222984/direct/01/
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
In order to help us help you, please follow the steps in: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Lauren found her dream laptop. Find the PC that?s right for you. http://www.microsoft.com/windows/choosepc/?ocid=ftp_val_wl_290
You can just use tksurfer, something like
tksurfer subject lh hippocampus
assuming you called it lh.hippocampus
There will be a lot of warnings/errors printed to the terminal. These just have to do with the fact that the number of vertices will be different than the cortical surfaces.
You can also load them into tkmedit:
tkmedit subject orig.mgz lh.hippocampus -aseg
to check how good the surface is.
doug
On Thu, 17 Sep 2009, Gonzalo Rojas Costa wrote:
Dear Douglas:
And how can I view (render) in 3D the hippocampus that I got frok aseg.mgz with the mri_binarize command ?...
Sincerely,
Gonzalo Rojas Costa
mri_binarize with --match 17 or --match 53 will do it
doug
Guang Zeng wrote:
Hi, there,
I'd like to extract the left and right hippocampus from aseg.mgz, so basically what I want is a volume where left hippocampus have value (or label) 17 and right hippocampus have value (or label) 53, all the other place are zero.
How can I do it? Using mri_threshold or mri_label2vol?
Thanks a lot!
Guang
Hotmail: Free, trusted and rich email service. Get it now.
http://clk.atdmt.com/GBL/go/171222984/direct/01/
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
In order to help us help you, please follow the steps in: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
freesurfer@nmr.mgh.harvard.edu
-
Bruce Fischl -
Doug Greve -
Gonzalo Rojas Costa -
Guang Zeng