Genome Biology publishes and distributes software, and may provide links to software available elsewhere. Descriptions of software may be subject to peer review as for primary research articles. All software articles are made available free to individuals through the web, and there are no restrictions on article length or on the types of information that can be included. The publication schedule is very fast, using electronic systems for article delivery, proofing and peer-review. For more details about how software is published in Genome Biology and for instructions for authors, see 'about refereed research'.

Software    

(14 March 2008)

A collection of software tools is combined for the first time in an automated pipeline for detecting large-scale genome assembly errors and for validating genome assemblies.

Software    

(15 February 2008)

Ancora is a web resource that provides data and tools for exploring genomic organization of highly conserved noncoding elements for multiple genomes.

Software    

(2 January 2008)

A new computational tool is presented that allows the integration of high-throughput experimental results with the probabilistic modeling of previously obtained information about cellular systems. The tool (MetaReg) is demonstrated on the leucine biosynthesis system in S.cerevisiae.

Software    

(26 November 2007)

PHOSIDA, a phosphorylation site database, integrates thousands of phosphosites identified by proteomics in various species.

Software    

(28 September 2007)

PAZAR is an open-access and open-source database of transcription factor and regulatory sequence annotation with associated web interface and programming tools for data submission and extraction.

Software    

(1 August 2007)

RASTA-Bacteria is an automated method that allows quick and reliable identification of toxin/antitoxin loci in sequenced prokaryotic genomes, whether they are annotated Open Reading Frames or not.

Software    

(21 August 2007)

The COmparative GENomic Toolkit, a framework for probabilistic analyses of biological sequences, devising workflows and generating publication quality graphics, has been implemented in Python.

Software    

(5 July 2007)

EXALT (EXpression signature AnaLysis Tool) enables comparisons of microarray data across experimental platforms and different laboratories.