When the Z-resolution is different from the XY resolution, how do we define the voxel scales in ilastik, in order to for it to work correctly? I search the documentation, but was not able to find the information. My goal is to do 3D pixel classification. Thanks!
ilastik does not allow for anisotropic filters (yet). We had a lot of success just ignoring the anisotropy and computing the filters with the same sigma in all directions, even for data with z-resolution 10 times worse than xy. If you have too few z slices for larger sigmas, make these filters 2D and the smaller ones 3D.