recipe bioconductor-dnacopy

DNA Copy Number Data Analysis

Homepage:

https://bioconductor.org/packages/3.20/bioc/html/DNAcopy.html

License:

GPL (>= 2)

Recipe:

/bioconductor-dnacopy/meta.yaml

Links:

biotools: dnacopy, doi: 10.1038/nmeth.3252

Implements the circular binary segmentation (CBS) algorithm to segment DNA copy number data and identify genomic regions with abnormal copy number.

package bioconductor-dnacopy

(downloads) docker_bioconductor-dnacopy

versions:
1.80.0-1,  1.80.0-0,  1.76.0-1,  1.76.0-0,  1.74.1-0,  1.72.0-1,  1.72.0-0,  1.68.0-2,  1.68.0-1, 

1.80.0-1,  1.80.0-0,  1.76.0-1,  1.76.0-0,  1.74.1-0,  1.72.0-1,  1.72.0-0,  1.68.0-2,  1.68.0-1,  1.68.0-0,  1.66.0-0,  1.64.0-1,  1.64.0-0,  1.62.0-0,  1.60.0-0,  1.58.0-2,  1.58.0-1,  1.58.0-0,  1.56.0-0,  1.54.0-0,  1.52.0-0,  1.50.1-0,  1.48.0-1,  1.48.0-0,  1.46.0-0,  1.44.0-0

depends libblas:

>=3.9.0,<4.0a0

depends libgcc:

>=13

depends libgfortran:

depends libgfortran5:

>=13.3.0

depends liblapack:

>=3.9.0,<4.0a0

depends r-base:

>=4.4,<4.5.0a0

requirements:

additional platforms:
linux-aarch64,  osx-arm64

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-dnacopy

and update with::

   mamba update bioconductor-dnacopy

To create a new environment, run:

mamba create --name myenvname bioconductor-dnacopy

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-dnacopy:<tag>

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

Download stats

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-dnacopy/README.html)