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This repository contains Perl scripts for working with GFF annotation files, including operations like sorting, merging and intersection. The scripts are hacky, unmaintained, and yet (presumably) largely bug-free as they have been in production use at the Sanger Institute, UC Berkeley and other locations since circa 1998. For more information, please visit this URL: http://biowiki.org/GffTools If you use the tools, please cite my PhD thesis: Holmes, I. PhD thesis. Dept of Genetics, University of Cambridge; Wellcome Trust Sanger Institute. 1998. Ian Holmes, UC Berkeley, August 2011