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Raphaël Leplae has updated the Pdoc software to have an improved stylesheet and fix several bugs including problems rendering Bio::DB::Fasta. Thanks a lot Raphaël and Patrick Meidl for getting the bugs reported and fixed for this nice POD to HTML converter.
You can see the Pdoc for Bioperl packages in action at the doc.bioperl.org site. See the bottom links which are for live code, the frozen version for releases remains, well, frozen.