OmicCircos: A Simple-to-Use R Package for the Circular Visualization of Multidimensional Omics Data

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  • Ying Hu
    Center for Biomedical Informatics and Information Technology, National Cancer Institute, Rockville, MD 20850, USA.
  • Chunhua Yan
    Center for Biomedical Informatics and Information Technology, National Cancer Institute, Rockville, MD 20850, USA.
  • Chih-Hao Hsu
    Center for Biomedical Informatics and Information Technology, National Cancer Institute, Rockville, MD 20850, USA.
  • Qing-Rong Chen
    Center for Biomedical Informatics and Information Technology, National Cancer Institute, Rockville, MD 20850, USA.
  • Kelvin Niu
    Center for Biomedical Informatics and Information Technology, National Cancer Institute, Rockville, MD 20850, USA.
  • George A. Komatsoulis
    Center for Biomedical Informatics and Information Technology, National Cancer Institute, Rockville, MD 20850, USA.
  • Daoud Meerzaman
    Center for Biomedical Informatics and Information Technology, National Cancer Institute, Rockville, MD 20850, USA.

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<jats:sec><jats:title>Summary</jats:title><jats:p> OmicCircos is an R software package used to generate high-quality circular plots for visualizing genomic variations, including mutation patterns, copy number variations (CNVs), expression patterns, and methylation patterns. Such variations can be displayed as scatterplot, line, or text-label figures. Relationships among genomic features in different chromosome positions can be represented in the forms of polygons or curves. Utilizing the statistical and graphic functions in an R/Bioconductor environment, OmicCircos performs statistical analyses and displays results using cluster, boxplot, histogram, and heatmap formats. In addition, OmicCircos offers a number of unique capabilities, including independent track drawing for easy modification and integration, zoom functions, link-polygons, and position-independent heatmaps supporting detailed visualization. </jats:p></jats:sec><jats:sec><jats:title>Availability and Implementation</jats:title><jats:p> OmicCircos is available through Bioconductor at http://www.bioconductor.org/packages/devel/bioc/html/OmicCircos.html . An extensive vignette in the package describes installation, data formatting, and workflow procedures. The software is open source under the Artistic—2.0 license. </jats:p></jats:sec>

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