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. 2014 Oct;30(19):2808-10.
doi: 10.1093/bioinformatics/btu379. Epub 2014 Jun 5.

Sushi.R: flexible, quantitative and integrative genomic visualizations for publication-quality multi-panel figures

Douglas H Phanstiel  1 , Alan P Boyle  1 , Carlos L Araya  1 , Michael P Snyder  1
Affiliations

Sushi.R: flexible, quantitative and integrative genomic visualizations for publication-quality multi-panel figures

Douglas H Phanstiel et al. Bioinformatics. 2014 Oct.

Abstract

Interpretation and communication of genomic data require flexible and quantitative tools to analyze and visualize diverse data types, and yet, a comprehensive tool to display all common genomic data types in publication quality figures does not exist to date. To address this shortcoming, we present Sushi.R, an R/Bioconductor package that allows flexible integration of genomic visualizations into highly customizable, publication-ready, multi-panel figures from common genomic data formats including Browser Extensible Data (BED), bedGraph and Browser Extensible Data Paired-End (BEDPE). Sushi.R is open source and made publicly available through GitHub (https://github.com/dphansti/Sushi) and Bioconductor (http://bioconductor.org/packages/release/bioc/html/Sushi.html).

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Figures

Fig. 1.
Fig. 1.
Multi-panel Sushi plot made without modification by external image-editing software. The Sushi functions used to create the plot include (A) plotManhattan, (B) plotHic, (C) plotBedpe, (D) plotBedpe, (E) plotBedgraph, (F) plotBedgraph, (G) plotBed, (H) plotManhattan, (I) plotBed, (J) plotGenes, (K) plotBed, (L) plotBedgraph, (M) plotBedgraph and (N) plotGenes. The code and data to make this figure are included as part of the Sushi.R package
See this image and copyright information in PMC

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Publication types