Hi Bruce,
Thanks to your advise, the combination of *mri_surf2surf **my_subject*
-> *fsaverage*(paint features to average brain) + *mris_convert -c
*.ascii*(output features to ascii) works well, all my subjects can have
the same number of vertice.
And it looks like the original xyz coordinate of*my_subject* can also be
passed to the average brain's vertices by *mri_surf2surf2 --sval_xyz
--tval_xyz*, which is terrific.
But beside vertex alignment another reason of wanting a 2D
representation of the surface features (hence my ridiculous idea of
creating template for each single subject), is to facilitate the random
sampling of tiny sheets from the whole surface for my simulation study,
since cutting a small rectangular (or other shape) from a picture is
much easier than working on vertices in 3D.
I found a solution by randomly selecting one vertex and retrieve it's
k-neighbour using the neighbour vertex table returned by *mris_convert
-v fsaverage*, it's still quite bit of work to be done though.
Is there any possibility to paint surface features to a picture in 2D
Longitude and Latitude coordinate?
Thank you so much.
On 06/20/2015 05:46 PM, Bruce Fischl wrote:
You probably don't need to create your own template - just use
mri_surf2surf to map the data (thickness, area, whatever) to fsaverage
and they will all have the same number of vertices
cheers
Bruce
On Sat, 20 Jun 2015, xiaoran tong wrote:
Dear FreeSurfer team:
I'm trying to model the cortical surface features with a artificial
neural
network. I need a uniformed number of input features but it turns out
the
vertices count varies from subject to subject.
Is that possible to map the vertices in the Talairach space of XYZ to
the
sphere template space of theta and phi, so I can work on 2D pictures of
uniformed length and width? Probably 251 x 256 like the FreeSurfer *.tif
template files.
According to
https://surfer.nmr.mgh.harvard.edu/fswiki/TemplateTifImageFiles
and
https://surfer.nmr.mgh.harvard.edu/fswiki/SurfaceRegAndTemplates
, I tried to create one registration template per subject with
make_average_subject command in this manner:
make_average_subject --subjects sbj_i --out sbj_i_template
, in the hope that I could at least extract the mean curvature and
convexity
of that subject in 2-D theta phe space from the resulting
sbj_i_template.tif
files.
It sounds ridiculous to call "make_average_subject" on just every single
subject, but I couldn't think of any way to extract vertex measures
and in
the them 2D (theta, phi) space. I'm not sure this is correct.
Beside curvatures, how should I extract other type of vertex
features, like
area, volume, and thickness in the 2D template space?
I'll be thankful for any suggestions.
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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
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.
