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Bioinformatics Advance Access published online on March 2, 2009
Bioinformatics, doi:10.1093/bioinformatics/btp097
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©2009 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

DIYA: A bacterial annotation pipeline for any genomics lab

Andrew C. Stewart 1, Brian Osborne 2,** and Timothy D. Read 1,*

1 Genomics Department, Biological Defense Research Directorate, Naval Medical Research Center, Rockville, Maryland, United States
2 The BioTeam Inc., Middleton, Massachusetts, United States

*To whom correspondence should be addressed. Dr. Timothy Read, E-mail: tread{at}emory.edu


  Abstract

Summary: DIYA (Do-It-Yourself Annotator) is a modular and configurable open source pipeline software, written in Perl, used for the rapid annotation of bacterial genome sequences. The software is currently used to take DNA contigs as input, either in the form of complete genomes or the result of shotgun sequencing, and produce an annotated sequence in GenBank file format as output.

Availability: Distribution and source code are available at (https://sourceforge.net/projects/diyg/).

*Corresponding author. Present address: Division of Infectious Diseases and Depertment of Human Genetics, Emory Univer-sity School of Medicine, Atlanta, Georgia, United States

Associate Editor: Prof. John Quackenbush

Received on August 26, 2008; revised on February 12, 2009; accepted on February 16, 2009

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