Bio Perl: a library of modules for doing nice Bio-stuff in Perl. http://bio.perl.org/
Some instructions on how to set up Bio Perl for our purposes can be found here: JBrowse.InstallTileRendering.
Miscellaneous Bio Perl notes:
How to get the Bio Perl version number (from Chris Mungall):
$ perl -MBio::Root::Version -e 'print "$Bio::Root::Version::VERSION\n"'
-- Andrew Uzilov - 07 Feb 2006