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Bug 3113 - kiel workshop issues - torso MRI

Reported 2016-04-28 12:10:00 +0200
Modified 2019-08-10 12:32:37 +0200
Product: FieldTrip
Component: fileio
Version: unspecified
Hardware: PC
Operating System: Mac OS
Importance: P5 normal
Assigned to:
Depends on:
See also:

Robert Oostenveld - 2016-04-28 12:10:37 +0200

On 28 Apr 2016, at 11:24, Cristiano Micheli wrote: *A user had a very specific need, to segment torso structures (interesting topic). We managed to load the dicom images into FT but somehow the slices were not parallel to xyz (even after volume reslice to isometric voxels).

Robert Oostenveld - 2016-04-28 12:22:07 +0200

voxels in dicom slices do not need to be aligned to each other. So it might be like ++++++++++++++++++++++++++++++++++ ++++++++++++++++++++++++++++++++++ ++++++++++++++++++++++++++++++++++ where they are shifted relative to each other. That is something ft_read_mri cannot deal with yet. Technically I think it would be possible to represent this in mri.anatomy and mri.transform, where the 4x4 would represent the "shear".

Robert Oostenveld - 2016-04-28 13:12:06 +0200

without access to data that demonstrates the skewed/sheared voxel alignment, I cannot resolve this.

Robert Oostenveld - 2019-08-10 12:32:37 +0200

This closes a whole series of bugs that have been resolved (either FIXED/WONTFIX/INVALID) for quite some time. If you disagree, please file a new issue on