VING: a software for visualization of deep sequencing signals

BMC Research Notes

Antonin Morillon²  Daniel Gautheret¹  Rachel Legendre¹  Maxime Wery²  Yousra Ben Zouari²  Marc Descrimes² 

[1] Institute for Integrative Biology of the Cell, CNRS, CEA, Université Paris Sud, Bâtiment 400, Orsay Cedex, 91405, France;ncRNA, Epigenetics and Genome Fluidity, Institut Curie, PSL Research University, CNRS UMR3244, Université Pierre et Marie Curie, 26 rue d’Ulm, Paris Cedex 05, 75248, France

关键词: Galaxy;    R;    High-quality figure;    Strand-specificity;    NGS signal visualization;   

Others  :  1230311
DOI  :  10.1186/s13104-015-1404-5

 received in 2015-04-01, accepted in 2015-08-31,  发布年份 2015

【 摘 要 】

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 at http://vm-gb.curie.fr/ving/. We also developed a Galaxy wrapper, available in the Galaxy tool shed with installation and usage instructions.

【 授权许可】

   
2015 Descrimes et al.

【 图 表 】

Fig.1.

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