To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("karyoploteR")

In most cases, you don't need to download the package archive at all.

karyoploteR

DOI: 10.18129/B9.bioc.karyoploteR    

This is the development version of karyoploteR; for the stable release version, see karyoploteR.

Plot customizable linear genomes displaying arbitrary data

Bioconductor version: Development (3.6)

karyoploteR creates karyotype plots of arbitrary genomes and offers a complete set of functions to plot arbitrary data on them. It mimicks many R base graphics functions coupling them with a coordinate change function automatically mapping the chromosome and data coordinates into the plot coordinates. In addition to the provided data plotting functions, it is easy to add new ones.

Author: Bernat Gel <bgel at igtp.cat>

Maintainer: Bernat Gel <bgel at igtp.cat>

Citation (from within R, enter citation("karyoploteR")):

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("karyoploteR")

Documentation

HTML R Script karyoploteR vignette
PDF   Reference Manual

Details

biocViews ChIPSeq, CopyNumberVariation, Coverage, DNASeq, DataImport, MethylSeq, OneChannel, Sequencing, Software, Visualization
Version 1.3.7
In Bioconductor since BioC 3.5 (R-3.4) (< 6 months)
License Artistic-2.0
Depends R (>= 3.4), regioneR, GenomicRanges, methods
Imports regioneR, GenomicRanges, IRanges, Rsamtools, stats, graphics, memoise, rtracklayer, GenomeInfoDb, S4Vectors, biovizBase, digest, bezier
LinkingTo
Suggests BiocStyle, knitr, testthat, magrittr, BSgenome.Hsapiens.UCSC.hg19, pasillaBamSubset
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package karyoploteR_1.3.7.tar.gz
Windows Binary karyoploteR_1.3.7.zip
Mac OS X 10.11 (El Capitan) karyoploteR_1.3.7.tgz
Source Repository git clone https://git.bioconductor.org/packages/karyoploteR
Package Short Url http://bioconductor.org/packages/karyoploteR/
Package Downloads Report Download Stats

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