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GenomeView : a next-generation genome browser

Thomas Abeel (UGent) , Thomas Van Parys (UGent) , Yvan Saeys (UGent) , James Galagan and Yves Van de Peer (UGent)
Author
Organization
Project
Bioinformatics: from nucleotids to networks (N2N)
Abstract
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.
Keywords
TECHNOLOGIES, TRANSCRIPTOME, GENE, VISUALIZATION, DESK-TOP COMPUTER, SEQUENCE, CHALLENGES, RESOLUTION, ALIGNMENT, VIEWER

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Citation

Please use this url to cite or link to this publication:

Chicago
Abeel, Thomas, Thomas Van Parys, Yvan Saeys, James Galagan, and Yves Van de Peer. 2012. “GenomeView : a Next-generation Genome Browser.” Nucleic Acids Research 40 (2).
APA
Abeel, T., Van Parys, T., Saeys, Y., Galagan, J., & Van de Peer, Y. (2012). GenomeView : a next-generation genome browser. NUCLEIC ACIDS RESEARCH, 40(2).
Vancouver
1.
Abeel T, Van Parys T, Saeys Y, Galagan J, Van de Peer Y. GenomeView : a next-generation genome browser. NUCLEIC ACIDS RESEARCH. 2012;40(2).
MLA
Abeel, Thomas, Thomas Van Parys, Yvan Saeys, et al. “GenomeView : a Next-generation Genome Browser.” NUCLEIC ACIDS RESEARCH 40.2 (2012): n. pag. Print.
@article{2042297,
  abstract     = {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.},
  articleno    = {e12},
  author       = {Abeel, Thomas and Van Parys, Thomas and Saeys, Yvan and Galagan, James and Van de Peer, Yves},
  issn         = {0305-1048},
  journal      = {NUCLEIC ACIDS RESEARCH},
  keyword      = {TECHNOLOGIES,TRANSCRIPTOME,GENE,VISUALIZATION,DESK-TOP COMPUTER,SEQUENCE,CHALLENGES,RESOLUTION,ALIGNMENT,VIEWER},
  language     = {eng},
  number       = {2},
  pages        = {10},
  title        = {GenomeView : a next-generation genome browser},
  url          = {http://dx.doi.org/10.1093/nar/gkr995},
  volume       = {40},
  year         = {2012},
}

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