GenomeView: a next-generation genome browser

Due to ongoing advances in sequencing technologies, billions of nucleotide sequences are now produced on a daily basis. A major challenge is to visualize these data for further downstream analysis. To this end, we present GenomeView, a stand-alone genome browser specifically designed to visualize an...

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Bibliographic Details
Published in:Nucleic acids research 2012-01, Vol.40 (2), p.e12-e12
Main Authors: Abeel, Thomas, Van Parys, Thomas, Saeys, Yvan, Galagan, James, Van de Peer, Yves
Format: Article
Language:English
Subjects:
Computer programs
Data processing
genomics
Genomics - methods
High-Throughput Nucleotide Sequencing
Methods Online
Molecular Sequence Annotation
Nucleotide sequence
Nucleotides
Semantics
Sequence Alignment - methods
Sequence Analysis, DNA
Sequence Analysis, RNA
Software
Systems Integration
User-Computer Interface
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Summary:Due to ongoing advances in sequencing technologies, billions of nucleotide sequences are now produced on a daily basis. A major challenge is to visualize these data for further downstream analysis. To this end, we present GenomeView, a stand-alone genome browser specifically designed to visualize and manipulate a multitude of genomics data. GenomeView enables users to dynamically browse high volumes of aligned short-read data, with dynamic navigation and semantic zooming, from the whole genome level to the single nucleotide. At the same time, the tool enables visualization of whole genome alignments of dozens of genomes relative to a reference sequence. GenomeView is unique in its capability to interactively handle huge data sets consisting of tens of aligned genomes, thousands of annotation features and millions of mapped short reads both as viewer and editor. GenomeView is freely available as an open source software package.
ISSN:0305-1048
1362-4962
DOI:10.1093/nar/gkr995