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Sequencing a genome to great depth can be highly informative about heterogeneity within an individual or a population. Here we address the problem of how to visualize the multiple layers of information contained in deep sequencing data. We propose an interactive AJAX-based web viewer for browsing large data sets of aligned sequence reads. By enabling seamless browsing and fast zooming, the LookSeq program assists the user to assimilate information at different levels of resolution, from an overview of a genomic region to fine details such as heterogeneity within the sample. A specific problem, particularly if the sample is heterogeneous, is how to depict information about structural variation. LookSeq provides a simple graphical representation of paired sequence reads that is more revealing about potential insertions and deletions than are conventional methods.

Original publication

DOI

10.1101/gr.093443.109

Type

Journal article

Journal

Genome research

Publication Date

11/2009

Volume

19

Pages

2125 - 2132

Addresses

Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, United Kingdom. mm6@sanger.ac.uk

Keywords

Animals, Humans, Plasmodium falciparum, Sequence Alignment, Genomics, Base Sequence, Sequence Homology, Nucleic Acid, Genome, Protozoan, Algorithms, Internet, Software, Molecular Sequence Data, Information Storage and Retrieval, Databases, Nucleic Acid, Genetic Variation