ggbio: an R package for extending the grammar of graphics for genomic data.

ggbio: an R package for extending the grammar of graphics for genomic data.
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DOI:
10.1186/gb-2012-13-8-r77
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发表时间:
2012-08-31
期刊:
影响因子:
12.3
通讯作者:
Lawrence M
Lawrence M
中科院分区:
生物学1区
文献类型:
--
作者:
Yin T;Cook D;Lawrence M

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我们介绍了ggbio,一种新的方法来可视化和探索基因组注释和高通量数据。这些图提供了基因组区域的详细视图,序列比对和剪接模式的概要视图,以及核图,圆形和大线性布局的全基因组概述。这些方法利用了R中可用的统计功能、图形语法和Bioconductor项目的数据处理能力。这些图是在模块化框架中指定的,使用户能够以系统的方式构建图,并直接从Bioconductor数据结构中生成。ggbio R包可从http://www.bioconductor.org/packages/2.11/bioc/html/ggbio.html获得。
We introduce ggbio, a new methodology to visualize and explore genomics annotations and high-throughput data. The plots provide detailed views of genomic regions, summary views of sequence alignments and splicing patterns, and genome-wide overviews with karyogram, circular and grand linear layouts. The methods leverage the statistical functionality available in R, the grammar of graphics and the data handling capabilities of the Bioconductor project. The plots are specified within a modular framework that enables users to construct plots in a systematic way, and are generated directly from Bioconductor data structures. The ggbio R package is available at http://www.bioconductor.org/packages/2.11/bioc/html/ggbio.html.
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