recipe bioconductor-copyhelper

Helper files for CopywriteR

Homepage:

https://bioconductor.org/packages/3.18/data/experiment/html/CopyhelpeR.html

License:

GPL-2

Recipe:

/bioconductor-copyhelper/meta.yaml

This package contains the helper files that are required to run the Bioconductor package CopywriteR. It contains pre-assembled 1kb bin GC-content and mappability files for the reference genomes hg18, hg19, hg38, mm9 and mm10. In addition, it contains a blacklist filter to remove regions that display CNV. Files are stored as GRanges objects from the GenomicRanges Bioconductor package.

package bioconductor-copyhelper

(downloads) docker_bioconductor-copyhelper

versions:
1.34.0-0,  1.32.0-0,  1.30.0-0,  1.29.0-0,  1.26.0-1,  1.26.0-0,  1.24.0-0,  1.22.0-1,  1.22.0-0, 

1.34.0-0,  1.32.0-0,  1.30.0-0,  1.29.0-0,  1.26.0-1,  1.26.0-0,  1.24.0-0,  1.22.0-1,  1.22.0-0,  1.21.0-0,  1.20.0-0,  1.18.0-0,  1.16.0-1,  1.16.0-0,  1.14.0-0,  1.12.0-0,  1.10.0-0

depends bioconductor-data-packages:

>=20231203

depends curl:

depends r-base:

>=4.3,<4.4.0a0

requirements:

Installation

You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).

While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.

Given that you already have a conda environment in which you want to have this package, install with:

   mamba install bioconductor-copyhelper

and update with::

   mamba update bioconductor-copyhelper

To create a new environment, run:

mamba create --name myenvname bioconductor-copyhelper

with myenvname being a reasonable name for the environment (see e.g. the mamba docs for details and further options).

Alternatively, use the docker container:

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

(see `bioconductor-copyhelper/tags`_ for valid values for ``<tag>``)

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Link to this page

Render an install-with-bioconda badge with the following MarkDown:

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