That is a surface file. Each of the 163842 values corresponds to a
vertex in the surface. If you want xyz, you need to load in the surface.
You can also analyze the data in the native space if that would make it
easier (but you can't surface smooth).
doug
On 05/30/2013 05:08 PM, Joseph Dien wrote:
> I tried using MRIread to look at the contents of the analysis files
> (using Fressurfer 5.2.0 under OS X 10.8.3 and Matlab 2013a):
>
> mri = MRIread('ces.nii.gz',0);
>
> but I'm getting one-dimensional vectors:
>
> >> mri
>
> mri =
>
> srcbext: ''
> analyzehdr: []
> bhdr: []
> vol: [1x163842 double]
> niftihdr: [1x1 struct]
> fspec: 'ces.nii.gz'
> pwd: '/Volumes/Data/CP1/fsfast/CPA003/bold/CPA.sm05.lh/CS-v-OTHERS'
> flip_angle: 0
> tr: 2000
> te: 0
> ti: 0
> vox2ras0: [4x4 double]
> volsize: [1 163842 1]
> height: 1
> width: 163842
> depth: 1
> nframes: 1
> vox2ras: [4x4 double]
> nvoxels: 163842
> xsize: 1.0000
> ysize: 1.0000
> zsize: 1.0000
> x_r: -0.9999
> x_a: 0.0067
> x_s: -0.0150
> y_r: 4.1714e-08
> y_a: 0.9131
> y_s: 0.4078
> z_r: -0.0164
> z_a: -0.4077
> z_s: 0.9130
> c_r: -6.8259e+04
> c_a: 465.0319
> c_s: -995.9002
> vox2ras1: [4x4 double]
> Mdc: [3x3 double]
> volres: [1.0000 1.0000 1.0000]
> tkrvox2ras: [4x4 double]
>
> It's fine when I read one of the functional files (f.nii.gz).
> Am I doing something wrong? Or if it is supposed to be like this, how
> do I convert to XYZ coordinates? The vox2ras fields are expecting a
> four-dimensional matrix.
>
> Thanks!
>
> Joe
>
> --------------------------------------------------------------------------------
>
> Joseph Dien,
> Senior Research Scientist
> University of Maryland
>
> E-mail: jdie...@mac.com <mailto:jdie...@mac.com>
> Phone: 301-226-8848
> Fax: 301-226-8811
> http://joedien.com//
>
>
>
>
>
>
>
>
>
>
>
--
Douglas N. Greve, Ph.D.
MGH-NMR Center
gr...@nmr.mgh.harvard.edu
Phone Number: 617-724-2358
Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2
www.nmr.mgh.harvard.edu/facility/filedrop/index.html
Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
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