A method for determining structure from motion in hyperspectral imaging includes acquiring hyperspectral data cubes containing intensity data, the intensity data being stored in dimensions of the hyperspectral data cube including a first spatial dimension, a second spatial dimension, and a spectrum dimension; establishing a set of baseline spectral features from a data cube for tracking between data cubes; establishing a set of standard features from a data cube for tacking between data cubes; matching, between data cubes, respective baseline features and standard features; and extracting imaging device motion information based on relative positions of matched baseline and standard features.