recipe bioconductor-karyoploter

Plot customizable linear genomes displaying arbitrary data

Homepage

https://bioconductor.org/packages/3.13/bioc/html/karyoploteR.html

License

Artistic-2.0

Recipe

/bioconductor-karyoploter/meta.yaml

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.

package bioconductor-karyoploter

Versions

1.18.0-0,  1.16.0-1,  1.16.0-0,  1.14.0-0,  1.12.0-0,  1.10.4-0,  1.8.5-0

Depends

• bioconductor-annotationdbi >=1.54.0,<1.55.0

• bioconductor-bamsignals >=1.24.0,<1.25.0

• bioconductor-biovizbase >=1.40.0,<1.41.0

• bioconductor-genomeinfodb >=1.28.0,<1.29.0

• bioconductor-genomicfeatures >=1.44.0,<1.45.0

• bioconductor-genomicranges >=1.44.0,<1.45.0

• bioconductor-iranges >=2.26.0,<2.27.0

• bioconductor-regioner >=1.24.0,<1.25.0

• bioconductor-rsamtools >=2.8.0,<2.9.0

• bioconductor-rtracklayer >=1.52.0,<1.53.0

• bioconductor-s4vectors >=0.30.0,<0.31.0

• bioconductor-variantannotation >=1.38.0,<1.39.0

• r-base >=4.1,<4.2.0a0

• r-bezier

• r-digest

• r-memoise

Required By

• bioconductor-ripat

• bioconductor-cnviz

• bioconductor-cnvfilter

• bioconductor-copynumberplots

• bioconductor-multicrispr

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-karyoploter

and update with:

conda update bioconductor-karyoploter

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-karyoploter:<tag>

(see bioconductor-karyoploter/tags for valid values for <tag>)

Download stats

Link to this page

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[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-karyoploter/README.html)