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Visualization tools for genomic data.

Bioconductor version: 3.0

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>

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PDF R Script Part 0: Introduction and quick start
PDF   Reference Manual
Text   NEWS


biocViews Infrastructure, Software, Visualization
Version 1.14.0
In Bioconductor since BioC 2.9 (R-2.14)
License Artistic-2.0
Depends methods, BiocGenerics, ggplot2 (>= 1.0.0)
Imports grid, grDevices, graphics, stats, utils, biovizBase(>= 1.13.8), reshape2, gtable, Biobase, S4Vectors(>= 0.2.3), IRanges(>= 1.99.28), GenomeInfoDb(>= 1.1.3), GenomicRanges(>= 1.17.40), Biostrings, Rsamtools(>= 1.17.28), GenomicAlignments(>= 1.1.16), BSgenome, gridExtra, scales, VariantAnnotation(>= 1.11.4), Hmisc, rtracklayer(>= 1.25.16), GenomicFeatures(>= 1.17.13), OrganismDbi, GGally
Suggests vsn, BSgenome.Hsapiens.UCSC.hg19, Homo.sapiens, TxDb.Hsapiens.UCSC.hg19.knownGene, chipseq, TxDb.Mmusculus.UCSC.mm9.knownGene, knitr, BiocStyle, testthat
Depends On Me CAFE, intansv
Imports Me derfinderPlot, FourCSeq, GenoView, Rariant, regionReport, ReportingTools, SomaticSignatures
Suggests Me beadarray, gwascat, interactiveDisplay, SomaticCancerAlterations
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