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Bioperl: Perl tools for computational molecular biology
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Some information about Bioperl from the Debian-Med project.
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The Bioperl project is a coordinated effort to collect computational methods
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routinely used in bioinformatics into a set of standard CPAN-style,
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well-documented, and freely available Perl modules.
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The Homepage is http://bio.perl.org/
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You can get a good overview by the main manpage: