ggbio : Visualization tools for genomic data.

Package: ggbio
Version: 1.20.1
Title: Visualization tools for genomic data.
Description: 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.
Authors@R: c(person("Tengfei", "Yin", role=c("aut"),
email="yintengfei@gmail.com"),
person("Michael", "Lawrence", role=c("aut", "ths", "cre"),
email="lawrence.michael@gene.com"),
person("Dianne", "Cook", role=c("aut", "ths")),
person("Johannes", "Rainer", role="ctb"))
Depends: methods, BiocGenerics, ggplot2 (>= 1.0.0)
Imports: grid, grDevices, graphics, stats, utils, gridExtra, scales,
reshape2, gtable, Hmisc, biovizBase (>= 1.19.1), Biobase,
S4Vectors (>= 0.9.25), IRanges, GenomeInfoDb (>= 1.1.3),
GenomicRanges (>= 1.21.10), SummarizedExperiment, Biostrings,
Rsamtools (>= 1.17.28), GenomicAlignments (>= 1.1.16),
BSgenome, VariantAnnotation (>= 1.11.4), rtracklayer (>=
1.25.16), GenomicFeatures (>= 1.17.13), OrganismDbi, GGally,
ensembldb (>= 1.3.8), AnnotationDbi
VignetteBuilder: knitr
Suggests: vsn, BSgenome.Hsapiens.UCSC.hg19, Homo.sapiens,
TxDb.Hsapiens.UCSC.hg19.knownGene, chipseq,
TxDb.Mmusculus.UCSC.mm9.knownGene, knitr, BiocStyle, testthat,
EnsDb.Hsapiens.v75
URL: http://tengfei.github.com/ggbio/
BugReports: https://github.com/tengfei/ggbio/issues
License: Artistic-2.0
LazyLoad: Yes
Collate: AllClasses.R AllGenerics.R Cache-class.R GGbio-class.R
Grob-class.R ideogram.R Tracked-class.R Plot-class.R
ggplot-method.R theme.R Tracks-class.R geom_chevron-method.R
geom_alignment-method.R geom_arch-method.R geom_arrow-method.R
geom_arrowrect-method.R geom_rect-method.R
geom_segment-method.R geom_bar-method.R layout_circle-method.R
layout_karyogram-method.R layout_linear-method.R
stat_aggregate-method.R stat_coverage-method.R
stat_identity-method.R stat_mismatch-method.R
stat_stepping-method.R stat_gene-method.R stat_table-method.R
stat_bin-method.R stat_slice-method.R stat_reduce-method.R
coord_genome-method.R autoplot-method.R hack.R
plotGrandLinear.R plotRangesLinkedToData.R
plotFragLength-method.R plotSpliceSum-method.R rescale-method.R
utils.R zzz.R
biocViews: Infrastructure, Visualization
NeedsCompilation: no
Packaged: 2016-05-16 03:06:32 UTC; biocbuild
Author: Tengfei Yin [aut],
Michael Lawrence [aut, ths, cre],
Dianne Cook [aut, ths],
Johannes Rainer [ctb]
Maintainer: Michael Lawrence <lawrence.michael@gene.com>