Manuscript documenting algorithms for cell boundary tracking and sampling window propagation implemented in u-register software

This document contains a manuscript by Hunter Elliott and colleages that was never published. It describes the cell boundary tracking and sampling window propagation implemented in the software u-register, which is part of the u-quantify software bundle by the Danuser lab. The intial code underlying u-register was written by Hunter Elliott when he was a graduate student at Scripps and at Harvard Medical School. Since then, other lab members have updated the code. The u-register software can be downloaded from https://github.com/DanuserLab.