VING: a software for visualization of deep sequencing signals. (December 2015)

• Record Type: Journal Article
• Authors: Descrimes, Marc; Zouari, Yousra; Wery, Maxime; Legendre, Rachel; Gautheret, Daniel; Morillon, Antonin
• Is Part Of: BMC research notes. Volume 8:Number 1(2015)
• Page Start: 1
• Page End: 4
• Publication Date: 2015-12
• Subjects: NGS signal visualization -- Strand-specificity -- High-quality figure -- R -- Galaxy; Medicine -- Periodicals; Biology -- Periodicals; 610.5
• DOI: 10.1186/s13104-015-1404-5
• Languages: English
• ISSNs: 1756-0500

Abstract

Abstract Background Next generation sequencing (NGS) data treatment often requires mapping sequenced reads onto a reference genome for further analysis. Mapped data are commonly visualized using genome browsers. However, such software are not suited for a publication-ready and versatile representation of NGS data coverage, especially when multiple experiments are simultaneously treated. Results We developed 'VING', a stand-alone R script that takes as input NGS mapping files and genome annotations to produce accurate snapshots of the NGS coverage signal for any specified genomic region. VING offers multiple viewing options, including strand-specific views and a special heatmap mode for representing multiple experiments in a single figure. Conclusions VING produces high-quality figures for NGS data representation in a genome region of interest. It is available athttp://vm-gb.curie.fr/ving/ . We also developed a Galaxy wrapper, available in the Galaxy tool shed with installation and usage instructions.