The present invention provides a method and apparatus for non-destructive testing of a seed. In various embodiments, the method may comprise vibrating the seed to orient the seed on an axis, identifying a location of a known feature of the seed, determining a sample location on the seed based on the location of the known feature, and performing a non-destructive testing procedure on the seed proximate the sample location. In one embodiment, the method may comprise removing a sample portion of the seed from the sample location without damaging the embryo of the seed. Accordingly, the viability of the seed may be maintained while allowing for subsequent testing on the sample portion of the seed.