BioPerl

Bioperl is a collection of Perl modules that facilitate the development of Perl scripts for bioinformatics applications. It is an open source software project which is still under active development. The first stable release was 1.0.0 in June 11 2002, the most recent stable release was in December 2003 with unstable developer releases produced periodically including October 112005.

In order to take advantage of BioPerl, the user needs a basic understanding of the Perl programming language including an understanding of how to use Perl references, modules, objects and methods.

Sale of benefits

Bioperl provides software modules for many of the typical tasks of bioinformatics programming. These include:

• Accessing sequence data from local and remote databases
• Transforming formats of database/ file records
• Manipulating individual sequences
• Searching for similar sequences
• Creating and manipulating sequence alignments
• Searching for genes and other structures on genomic DNA
• Developing machine readable sequence annotations

See also

• Open Bioinformatics Foundation

External links

• BioPerl.org
• A Tutorial for using BioPerl [1]
• HOWTO [2] documents for using BioPerl
• An article titled "The Bioperl Toolkit: Perl Modules for the Life Sciences" [3] published in the scientific journal Genome Research
• mGen [4] containing four of the world biggest databases GenBank, Refseq, EMBL and DDBJ - easy and simple program friendly gene extraction