How do I convert my data to a format Mist can read?

Mist can read 3D tiff-files and vtk-files, see the reference manual for details. See this video showing how to create a 3D tiff-file from a set of 2D images. The video shows how to do this in ImageJ (free software), but 3D tiff-stacks can be created in many imaging softwares. You can also find code here to create 3D tiff-files using Matlab.

Illustrations from Mist that are referred to as 2D structures in the tutorial, like the complex 2D structure in the geodesic distance-tutorial, were created using 3D demo structures that have identical 2D slices in the xz-plane.