Introduction

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.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.

Publications

  1. OmicCircos: A Simple-to-Use R Package for the Circular Visualization of Multidimensional Omics Data.
    Cite this
    Hu Y, Yan C, Hsu CH, Chen QR, Niu K, Komatsoulis GA, Meerzaman D, 2014-01-01 - Cancer informatics

Credits

  1. Ying Hu
    Developer

    Center for Biomedical Informatics and Information Technology, National Cancer Institute, United States of America

  2. Chunhua Yan
    Developer

    Center for Biomedical Informatics and Information Technology, National Cancer Institute, United States of America

  3. Chih-Hao Hsu
    Developer

    Center for Biomedical Informatics and Information Technology, National Cancer Institute, United States of America

  4. Qing-Rong Chen
    Developer

    Center for Biomedical Informatics and Information Technology, National Cancer Institute, United States of America

  5. Kelvin Niu
    Developer

    Center for Biomedical Informatics and Information Technology, National Cancer Institute, United States of America

  6. George A Komatsoulis
    Developer

    Center for Biomedical Informatics and Information Technology, National Cancer Institute, United States of America

  7. Daoud Meerzaman
    Investigator

    Center for Biomedical Informatics and Information Technology, National Cancer Institute, United States of America

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Summary
AccessionBT001462
Tool TypeApplication
Category
PlatformsLinux/Unix
TechnologiesR
User InterfaceTerminal Command Line
Download Count0
Country/RegionUnited States of America
Submitted ByDaoud Meerzaman