Bug Bulletin: The recent 3.2 release fixes many issues. If you run into a problem, please try the latest version before posting a bug report, as your problem may already have been solved.

GenomeSTRiP

Genome STRiP (Genome STRucture In Populations) -- Tools for discovering and genotyping structural variations using sequencing data. See http://www.broadinstitute.org/software/genomestrip/ for more details.