Review abstract


Nature Methods 6, S6 - S12 (2009)
Corrected online: 6 May 2010 | doi:10.1038/nmeth.1376



There is a Corrigendum (June 2010) associated with this Review.

Sense from sequence reads: methods for alignment and assembly

Paul Flicek1 & Ewan Birney1


The most important first step in understanding next-generation sequencing data is the initial alignment or assembly that determines whether an experiment has succeeded and provides a first glimpse into the results. In parallel with the growth of new sequencing technologies, several algorithms that align or assemble the large data output of today's sequencing machines have been developed. We discuss the current algorithmic approaches and future directions of these fundamental tools and provide specific examples for some commonly used tools.

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  1. European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK.

Correspondence to: Paul Flicek1 e-mail: flicek@ebi.ac.uk

* In the version of this article initially published online, the caption to Figure 3b was mislabeled. It shows a de Bruijn graph of two plasmids partially overlapping in sequence. The error has been corrected online in the HTML and PDF versions of the article.

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