Hello,
When I open my NIfTI file using fsleyes, I see the images displayed upside down (with the top of the head and the label S at the bottom of the application instead of the top).
If I select "World coordinates" in the display space, then the head is correctly displayed with the top of the head and the S label at the top of the screen. I wanted to attach images to illustrate but my previous post was rejected because of the size of the post.
I am not sure why I observe this behaviour on the NIfTI files I have. Do you have any idea why I experience this?
Thank you for your help.
Best,
Cécile
PS: in case that is helpful, here is the header information I obtain when running fslhd on the same file
size of header 348
data_type FLOAT32
dim0 3
dim1 176
dim2 240
dim3 256
dim4 0
dim5 0
dim6 0
dim7 0
vox_units Unknown
time_units Unknown
datatype 16
nbyper 4
bitpix 32
pixdim0 0.000000
pixdim1 1.000000
pixdim2 1.000000
pixdim3 1.000000
pixdim4 0.000000
pixdim5 0.000000
pixdim6 0.000000
pixdim7 0.000000
vox_offset 352
cal_max 0.000000
cal_min 0.000000
scl_slope 0.000000
scl_inter 0.000000
phase_dim 0
freq_dim 0
slice_dim 0
slice_name Unknown
slice_code 0
slice_start 0
slice_end 0
slice_duration 0.000000
toffset 0.000000
intent Unknown
intent_code 0
intent_name
intent_p1 0.000000
intent_p2 0.000000
intent_p3 0.000000
qform_name Unknown
qform_code 0
qto_xyz:1 1.000000 0.000000 0.000000 0.000000
qto_xyz:2 0.000000 1.000000 0.000000 0.000000
qto_xyz:3 0.000000 0.000000 1.000000 0.000000
qto_xyz:4 0.000000 0.000000 0.000000 1.000000
qform_xorient Left-to-Right
qform_yorient Posterior-to-Anterior
qform_zorient Inferior-to-Superior
sform_name Unknown
sform_code 1
sto_xyz:1 0.999353 -0.011709 -0.034021 -88.706795
sto_xyz:2 -0.011703 -0.999931 0.000398 142.143250
sto_xyz:3 -0.034023 0.000000 -0.999421 101.400314
sto_xyz:4 0.000000 0.000000 0.000000 1.000000
sform_xorient Left-to-Right
sform_yorient Anterior-to-Posterior
sform_zorient Superior-to-Inferior
file_type NIFTI-1+
file_code 1
descrip mnc2nii /data/preventad/data//assembly/1004359/PREBL00/mri/processed/MINC_defac
aux_file
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