If you've already run qcache, then it will be in the subject/surf folder
with a name like lh.thickness.fsaverage.fwhm10.mgz
On 2/6/18 11:22 PM, 박경일 wrote:
Thanks, Bruce.
From that, I got thickness data (vertex#, location x/y/z, thickness
value). But, amount and location of vertex are different among subjects.
As far as i understand, it is the subject space, not common space. is
that right?
If so, how can i get the thickness values in common space to compare
the vertex data between subjects?
(I'd already run recon-all and qcache process.)
Kyung
2018-02-03 0:33 GMT+09:00 Bruce Fischl <fis...@nmr.mgh.harvard.edu
<mailto:fis...@nmr.mgh.harvard.edu>>:
Hi Kyung
you should look at the mris_convert help. It has an example of how
to convert a scalar overlay like a curv file to ascii:
Convert a scalar overlay file to ascii:
mris_convert -c lh.thickness lh.white lh.thickness.asc
it needs the surface as an input to do the conversion properly.
cheers
Bruce
On Fri, 2 Feb 2018, 박경일 wrote:
Hi Bruce
I found a directory having a file with ".curv", open terminal
and run following command.
[root@localhost surf]# mris_convert rh.curv rh.curv.asc
nquads=4587523, nvertices=476
ERROR: MRISread: file 'rh.curv' has many more faces than vertices!
Probably trying to use a scalar data file as a surface!
No such file or directory
what is wrong?
Thanks as always.
Kyung
2018-01-31 0:04 GMT+09:00 Bruce Fischl
<fis...@nmr.mgh.harvard.edu <mailto:fis...@nmr.mgh.harvard.edu>>:
Hi Kyung
the thickness values are stored as "curvature" file
format that you can load into matlab
with read_curv.m. Alternatively, you can convert them to
ascii with mris_convert and do
what you want with them. For each index, you can look up
its location on the white or
pial (or whatever surface). That is, for the 2nd
thickness value (index 1), you would go
find vertex #1 on the other surface and read its
location that way
cheers
Bruce
On Tue, 30 Jan 2018, 박경일 wrote:
Hi Bruce, I am very new for FS, so did not
understand you comments
completely. sorry..
For cortical thickness from each vertex in one
subject, which scripts should
follow "mris_convert"?
And another question is how to recognize the
location of each vertex in
brain finally.
thank you so much
Kyung
2017-11-13 10:06 GMT+09:00 Bruce Fischl
<fis...@nmr.mgh.harvard.edu <mailto:fis...@nmr.mgh.harvard.edu>>:
p.s. if you want the vertices to correspond,
first run recon-all
-qcache for each
subject. That will generate a set of
thickness maps in fsaverage space
at predefined
smoothing levels (so that the vertex numbers
correspond across
subjects)
On Mon, 13 Nov 2017, 박경일 wrote:
Hi Bruce,What I want is the values of
cortical thickness in each
vertex in
each subject. Is that
possible?
Thanks so much.
Kyung
2017-11-13 0:43 GMT+09:00 Bruce Fischl
<fis...@nmr.mgh.harvard.edu
<mailto:fis...@nmr.mgh.harvard.edu>>:
Hi Kyung
you can load them into matlab or
convert them to ascii if
you want
Bruce
On Sun, 12 Nov 2017, 박경일 wrote:
Dear FS experts,
I could get QDEC image
comparing two groups.
However, is there a way to
get numerical values of
cortical
thickness in
each vertex?
Thank you
Best,
Kyung
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