[ITK-users] dicom viewer/nifti discrepancy
Nicholas Tustison
ntustison at gmail.com
Fri Apr 24 14:37:37 EDT 2015
Hi all,
I have a set of dicom data that were annotated by clinical
folk. Specifically, I have slice numbers for each image
volume which indicate a particular feature of interest. The
problem is that the slice number can either be counted from
the most inferior slice or the most superior slice. When I
view these dicom image volumes in Osirix or Fiji, the slice
number provided by the viewer corresponds to my clinical
numbers. However, when I convert to nifti (using dcm2nii or
mriconvert), the index, in ITK terminology, always starts from the
most inferior slice. At first, I thought it was some dicom tag that
was being read by the viewer to orient the index but, after following
a couple of possibilities, I haven’t found anything. Has anyone
come across anything like this?
Thanks,
Nick
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