and how do you measure volume? Certainly the voxel count is bound to
change since your voxel size is changing. The volume will certainly
change as well.
cheers,
Bruce
On Thu, 19 Feb 2009, Jeff Dewey wrote:
To answer your question more completely, we're trying to compare two files
with the following headers:
Freesurfer segmentation:
height = 256
width = 256
depth = 256
nframe = 1
imnr0 = 1
imnr1 = 256
xnum = 256
ynum = 256
fov = 256.000000
thick = 1.000000
xstart = -128.000000
xend = 128.000000
ystart = -128.000000
yend = 128.000000
zstart = -128.000000
zend = 128.000000
type = 0
xsize = 1.000000
ysize = 1.000000
zsize = 1.000000
x ras = -1.000000 0.000000 0.000000
y ras = 0.000000 0.000000 -1.000000
z ras = 0.000000 1.000000 0.000000
c ras = 0.000000 -0.000015 17.750004
det(xyz_ras) = -1.000000
ras_good_flag = 1
brightness = 1
subject_name =
path_to_t1 =
fname_format =
Target image:
height = 256
width = 256
depth = 120
nframe = 1
imnr0 = 1
imnr1 = 120
xnum = 256
ynum = 256
fov = 256.000000
thick = 1.000000
xstart = -128.000000
xend = 128.000000
ystart = -128.000000
yend = 128.000000
zstart = -60.000000
zend = 60.000000
type = 3
xsize = 0.976562
ysize = 0.976562
zsize = 1.300000
x ras = 1.000000 0.000000 0.000000
y ras = 0.000000 -1.000000 0.000000
z ras = 0.000000 0.000000 1.000000
c ras = 0.000000 0.000000 17.749996
det(xyz_ras) = -1.000000
ras_good_flag = 1
brightness = 1
subject_name =
path_to_t1 =
fname_format =
It's also acceptable to convert the target image to the freesurfer output
space, as long as structure volumes in the segmentation are preserved.
Thanks again,
Jeff
Bruce Fischl wrote:
what are the voxel sizes?
On Wed, 18 Feb 2009, Jared Price wrote:
Dear gurus,
when running mri_convert -rt nearest -ot nii -rl 001.mgz seg_edited.mgz
seg_edited_axial.nii to reslice from coronal to axial space we are seeing
some significant volume changes in the segmentation. Anyone know why or
how to fix it.
Jared
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