recipe bioconductor-cnvgears

A Framework of Functions to Combine, Analize and Interpret CNVs Calling Results

Homepage:

https://bioconductor.org/packages/3.17/bioc/html/CNVgears.html

License:

GPL-3

Recipe:

/bioconductor-cnvgears/meta.yaml

This package contains a set of functions to perform several type of processing and analysis on CNVs calling pipelines/algorithms results in an integrated manner and regardless of the raw data type (SNPs array or NGS). It provides functions to combine multiple CNV calling results into a single object, filter them, compute CNVRs (CNV Regions) and inheritance patterns, detect genic load, and more. The package is best suited for studies in human family-based cohorts.

package bioconductor-cnvgears

(downloads) docker_bioconductor-cnvgears

versions:

1.8.0-0,  1.6.0-0,  1.2.0-0,  1.0.0-0

depends r-base:

>=4.3,<4.4.0a0

depends r-data.table:

depends r-ggplot2:

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-cnvgears

and update with::

   mamba update bioconductor-cnvgears

To create a new environment, run:

mamba create --name myenvname bioconductor-cnvgears

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-cnvgears:<tag>

(see `bioconductor-cnvgears/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-cnvgears/README.html)