Technical Reports are equivalent to preprints in many ways. This one will eventually be published but right now is subject to non-disclosure rules as it is the basis for an STTR application to NIH and key to future software development at the company.
We describe a new algorithm for segmenting 3-dimensional medical imaging data, which we abstract as continuous functions on 3-manifolds. The algorithm is related to watershed algorithms developed in image processing but is closer to its mathematical roots, which are Morse theory and homological algebra. It allows for the implicit treatment of its mathematical foundations with the computational efficiency of image processing.