Thanks for quick reply =)

The input is primarily made in ITK SNAP, but we use FSL FAST results for striping it from CSF and segmentating it to white and grey matter. And then we use fslswapdim for flipping right temporal lobes. So the input is binary segmentation in NIFTI .nii format.

I am enclosing the image of *surfSPHARM.vtk with the result of ShapeAnalysisMANCOVA along. The result is as expected, but I would like to know I there is a way to tell something like "Red areas differ by 2 mm, yellow ones by 1 mm".

As you see, I am already using ShapePopulationViewer, but I thought that MeshMath is run during ShapeAnalysisModule and I have no idea how to use it.

Thanks again,
A.