This link is to software in support of the paper I submitted to Journal of Computational Biology. The software herein computes binary Burrows-Wheeler transforms, their ascii representation, and not much else.
The work with Burrows-Wheeler transforms has continued. In particular, improvements have been made for finding exact matches between large genomes on very modest hardware. The latest version, 2.3, corrects a few gcc/C++ standards bugs mostly (6 June 2008).
What is the Burrows-Wheeler transform? Why should you care? Well, if you are a random individual, you shouldn't. However, if you do care then you can find one of what will hopefully be one of two papers published on it at here.