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Bioinformatics Advance Access originally published online on August 5, 2004
Bioinformatics 2005 21(1):135-136; doi:10.1093/bioinformatics/bth458
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Bioinformatics vol. 21 issue 1 © Oxford University Press 2005; all rights reserved.

Network structures and algorithms in Bioconductor

Vincent J. Carey 1,*, Jeff Gentry 2, Elizabeth Whalen 2 and Robert Gentleman 2

1 Channing Laboratory, Brigham and Women's Hospital 75 Francis Street, Boston, MA 02115, USA
2 Division of Biostatistics, Dana Farber Cancer Institute 44 Binney Street, Boston, MA 02115, USA

*To whom correspondence should be addressed.

Summary: In this paper, we review the central concepts and implementations of tools for working with network structures in Bioconductor. Interfaces to open source resources for visualization (AT&T Graphviz) and network algorithms (Boost) have been developed to support analysis of graphical structures in genomics and computational biology.

Availability: Packages graph, Rgraphviz, RBGL of Bioconductor (www.bioconductor.org).

Contact: stvjc{at}channing.harvard.edu

Received on May 28, 2004; revised on July 12, 2004; accepted on July 27, 2004

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