DOI: 10.18129/B9.bioc.karyoploteR  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see karyoploteR.

Plot customizable linear genomes displaying arbitrary data

Bioconductor version: 3.16

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")):


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biocViews ChIPSeq, CopyNumberVariation, Coverage, DNASeq, DataImport, MethylSeq, OneChannel, Sequencing, Software, Visualization
Version 1.24.0
In Bioconductor since BioC 3.5 (R-3.4) (6 years)
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, GenomicFeatures, bamsignals, AnnotationDbi, grDevices, VariantAnnotation
Suggests BiocStyle, knitr, rmarkdown, markdown, testthat, magrittr, BSgenome.Hsapiens.UCSC.hg19, BSgenome.Hsapiens.UCSC.hg19.masked, TxDb.Hsapiens.UCSC.hg19.knownGene, TxDb.Mmusculus.UCSC.mm10.knownGene, org.Hs.eg.db, org.Mm.eg.db, pasillaBamSubset
URL https://github.com/bernatgel/karyoploteR
BugReports https://github.com/bernatgel/karyoploteR/issues
Depends On Me CopyNumberPlots
Imports Me CNVfilteR, CNViz, multicrispr, RIPAT
Suggests Me Category, EpiMix
Links To Me
Build Report  

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Source Package karyoploteR_1.24.0.tar.gz
Windows Binary karyoploteR_1.24.0.zip
macOS Binary (x86_64) karyoploteR_1.24.0.tgz
macOS Binary (arm64) karyoploteR_1.24.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/karyoploteR
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/karyoploteR
Bioc Package Browser https://code.bioconductor.org/browse/karyoploteR/
Package Short Url https://bioconductor.org/packages/karyoploteR/
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