Documentation/Nightly/FAQ/Viewing and Resampling

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Viewing and Resampling

What coordinate systems does Slicer use?

See this documentation of Slicer coordinate systems.

How can I use the reformat widget view to resample my images?

You can do something like this in the python console:

red = getNodes('vtkMRMLSliceNode*')['Red']
m = vtk.vtkMatrix4x4()
m.DeepCopy(red.GetSliceToRAS())
m.Invert()

t = slicer.vtkMRMLLinearTransformNode()
t.SetAndObserveMatrixTransformToParent(m)
 

Then put your volume under “t" or provide "t" as the transform to one of the Resample modules.