recipe r-exomedepth

Calls copy number variants (CNVs) from targeted sequence data, typically exome sequencing experiments designed to identify the genetic basis of Mendelian disorders.

Homepage:

https://CRAN.R-project.org/package=ExomeDepth

License:

GPL3 / GPL-3

Recipe:

/r-exomedepth/meta.yaml

package r-exomedepth

versions:

1.1.16-4,  1.1.16-3,  1.1.16-2,  1.1.16-1,  1.1.16-0,  1.1.15-4,  1.1.15-3,  1.1.15-2,  1.1.15-1, 

1.1.16-4,  1.1.16-3,  1.1.16-2,  1.1.16-1,  1.1.16-0,  1.1.15-4,  1.1.15-3,  1.1.15-2,  1.1.15-1,  1.1.15-0,  1.1.12-0,  1.1.10-4,  1.1.10-3,  1.1.10-2,  1.1.10-0

depends bioconductor-biostrings:

>=2.74.0,<2.75.0a0

depends bioconductor-genomicalignments:

>=1.42.0,<1.43.0a0

depends bioconductor-genomicranges:

>=1.23.0

depends bioconductor-genomicranges:

>=1.58.0,<1.59.0a0

depends bioconductor-iranges:

>=2.40.0,<2.41.0a0

depends bioconductor-rsamtools:

>=2.22.0,<2.23.0a0

depends libgcc:

>=13

depends libgfortran:

depends libgfortran5:

>=13.3.0

depends libstdcxx:

>=13

depends r-aod:

depends r-base:

>=4.4,<4.5.0a0

depends r-dplyr:

depends r-magrittr:

depends r-vgam:

>=0.8.4

requirements:

additional platforms:

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 r-exomedepth

and update with::

   mamba update r-exomedepth

To create a new environment, run:

mamba create --name myenvname r-exomedepth

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/r-exomedepth:<tag>

(see `r-exomedepth/tags`_ for valid values for ``<tag>``)

Download stats

Link to this page

Render an 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/r-exomedepth/README.html)