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Bioinformatics Advance Access originally published online on April 27, 2009
Bioinformatics 2009 25(15):1974-1975; doi:10.1093/bioinformatics/btp250
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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.

VARNA: Interactive drawing and editing of the RNA secondary structure

Kévin Darty 1, Alain Denise 1,2 and Yann Ponty 1,3,*

1 LRI, UMR CNRS 8623, 2 IGM, UMR CNRS 8621, Université Paris-Sud 11 F91405 Orsay cedex and 3 Génomique Analytique, INSERM U511, 75013 Paris, France

* To whom correspondence should be addressed.


  Abstract

Description: VARNA is a tool for the automated drawing, visualization and annotation of the secondary structure of RNA, designed as a companion software for web servers and databases.

Features: VARNA implements four drawing algorithms, supports input/output using the classic formats dbn, ct, bpseq and RNAML and exports the drawing as five picture formats, either pixel-based (JPEG, PNG) or vector-based (SVG, EPS and XFIG). It also allows manual modification and structural annotation of the resulting drawing using either an interactive point and click approach, within a web server or through command-line arguments.

Availability: VARNA is a free software, released under the terms of the GPLv3.0 license and available at http://varna.lri.fr

Contact: ponty{at}lri.fr

Supplementary information: Supplementary data are available at Bioinformatics online.

Associate Editor: Ivo Hofacker

Received on December 15, 2008; revised on April 7, 2009; accepted on April 7, 2009

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