BioPerl Open source toolkit of Perl modules useful in building bioinformatics solutions in Perl
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BioPerl Tags

analyze parse automate Bioinformatics analysis bioinformatics parser bioinformation automation

BioPerl Description

Open source toolkit of Perl modules useful in building bioinformatics solutions in Perl BioPerl is built in an object-oriented manner so that many modules depend on each other to achieve a task. The collection of modules in the bioperl-live repository consist of the core of the functionality of bioperl. Additionally auxiliary modules for creating graphical interfaces (bioperl-gui), persistent storage in RDMBS (bioperl-db), running and parsing the results from hundreds of bioinformatics applications (Run package), software to automate bioinformatic analyses (bioperl-pipeline) are all available as Subversion modules in our repository.The BioPerl toolkit is divided into several packages, most people will only want to deal with the Core package:· Core package provides the main parsers, this is the basic package and it's required by all the other packages (bioperl-live SVN directory)· Run package provides wrappers for executing some 60 common bioinformatics applications (bioperl-run in SVN)· BioPerl db package is a subproject to store sequence and annotation data in a BioSQL relational database (bioperl-db in SVN).· Network package parses and analyzes protein-protein interaction data (bioperl-network in SVN).Fink installation: To install the developer release of BioPerl, issue the following command: "fink install bioperl-pmXXX", where XXX is the Perl version that is installed on your system, (eg 586 or 588).NOTE: BioPerl is licensed under the same terms as Perl itself which is dually-licensed under the terms of the GNU GPL or the Perl Artistic License.

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