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The Bioperl pipeline framework is a flexible workflow system that complements the Bioperl package by providing job management facilities for high throughput sequence analysis. It also known as Biopipe. This system is heavily inspired by the EnsEMBL Pipeline system. For complete installation instructions on Biopipe and all the associated components please see http://www.biopipe.org/bioperl-pipeline-install.html. For installation instructions on the package itself please see the accompanying INSTALL file. For articles on Biopipe and HOWTO documents on specific aspects of Biopipe please see http://www.biopipe.org/bioperl-pipeline-docs.html. Questions about Biopipe can be directed to firstname.lastname@example.org, join this group at www.biopipe.org.