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Bioinformatics Advance Access originally published online on March 23, 2009
Bioinformatics 2009 25(11):1438-1439; doi:10.1093/bioinformatics/btp165
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© The Author 2009. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

BioconductorBuntu: a Linux distribution that implements a web-based DNA microarray analysis server

Paul Geeleher 1,*, Dermot Morris 2, John P. Hinde 1 and Aaron Golden 3

1School of Mathematics, Statistics and Applied Mathematics, National University of Ireland, 2Animal Production Research Centre, Teagasc, Mellows Campus, Athenry, Co. Galway and 3National Centre for Biomedical Engineering Science, National University of Ireland, Galway, Ireland

*To whom correspondence should be addressed.


  Abstract

Summary: BioconductorBuntu is a custom distribution of Ubuntu Linux that automatically installs a server-side microarray processing environment, providing a user-friendly web-based GUI to many of the tools developed by the Bioconductor Project, accessible locally or across a network. System installation is via booting off a CD image or by using a Debian package provided to upgrade an existing Ubuntu installation. In its current version, several microarray analysis pipelines are supported including oligonucleotide, dual-or single-dye experiments, including post-processing with Gene Set Enrichment Analysis. BioconductorBuntu is designed to be extensible, by server-side integration of further relevant Bioconductor modules as required, facilitated by its straightforward underlying Python-based infrastructure. BioconductorBuntu offers an ideal environment for the development of processing procedures to facilitate the analysis of next-generation sequencing datasets.

Availability: BioconductorBuntu is available for download under a creative commons license along with additional documentation and a tutorial from http://bioinf.nuigalway.ie

Contact: paul.geeleher{at}nuigalway.ie

Associate Editor: Olga Troyanskaya

Received on October 15, 2008; revised on March 5, 2009; accepted on March 18, 2009

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