Plotting data and annotation information along genomic coordinates

Bioconductor version: Release (2.12)

Genomic data analyses requires integrated visualization of known genomic information and new experimental data. Gviz uses the biomaRt and the rtracklayer packages to perform live annotation queries to Ensembl and UCSC and translates this to e.g. gene/transcript structures in viewports of the grid graphics package. This results in genomic information plotted together with your data.

Author: Florian Hahne, Steffen Durinck, Robert Ivanek, Arne Mueller, Steve Lianoglou

Maintainer: Florian Hahne <florian.hahne at novartis.com>

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PDF R Script Gviz users guide
PDF ucsc1.pdf
PDF ucsc2.pdf
PDF   Reference Manual
Text   NEWS


biocViews Microarray, Software, Visualization
Version 1.4.5
In Bioconductor since BioC 2.10 (R-2.15)
License Artistic-2.0
Depends R (>= 2.10.0), methods, grid
Imports IRanges(>= 1.13.19), rtracklayer(>= 1.15.5), lattice, RColorBrewer, biomaRt(>= 2.11.0), GenomicRanges(>= 1.7.14), AnnotationDbi(>= 1.17.11), Biobase(>= 2.15.3), BiocGenerics(>= 0.1.4), GenomicFeatures(>= 1.9.7), BSgenome(>= 1.25.1), Biostrings(>= 2.25.1), biovizBase(>= 1.5.7), Rsamtools(>= 1.11.1)
Suggests xtable, GenomicFeatures, BSgenome.Hsapiens.UCSC.hg19, biomaRt, rtracklayer
System Requirements
Depends On Me biomvRCNS, cummeRbund
Imports Me methyAnalysis, PING
Suggests Me gwascat, QuasR, SplicingGraphs

Package Downloads

Package Source Gviz_1.4.5.tar.gz
Windows Binary Gviz_1.4.5.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) Gviz_1.4.5.tgz
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