ggbio

Static visualization for genomic data.

Bioconductor version: 2.9

The ggbio package extends and specializes the grammar of graphics for biological data. The graphics are designed to answer common scientific questions, in particular those often asked of high throughput genomics data. All core Bioconductor data structures are supported, where appropriate. The package supports detailed views of particular genomic regions, as well as genome-wide overviews. Supported overviews include ideograms and grand linear views. High-level plots include sequence fragment length, edge-linked interval to data view, mismatch pileup, and several splicing summaries.

Author: Tengfei Yin, Dianne Cook, Michael Lawrence

Maintainer: Tengfei Yin <yintengfei at gmail.com>

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("ggbio")

To cite this package in a publication, start R and enter:

    citation("ggbio")

Documentation

PDF R Script An Introduction to ggbio
PDF   Reference Manual
Text   NEWS

Details

biocViews Infrastructure, Visualization, Bioinformatics
Depends methods, biovizBase, ggplot2
Imports methods, biovizBase, ggplot2, IRanges, GenomicRanges, GenomicFeatures, Rsamtools, BSgenome, gridExtra, scales
Suggests BSgenome.Hsapiens.UCSC.hg19, TxDb.Hsapiens.UCSC.hg19.knownGene
System Requirements
License Artistic-2.0
URL
Depends On Me
Imports Me
Suggests Me
Version 1.0.4
Since Bioconductor 2.9 (R-2.14)

Package Downloads

Package Source ggbio_1.0.4.tar.gz
Windows Binary ggbio_1.0.4.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary ggbio_1.0.4.tgz
Package Downloads Report Download Stats

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