recipe bioconductor-epistasisga

An R package to identify multi-snp effects in nuclear family studies using the GADGETS method

Homepage:

https://bioconductor.org/packages/3.18/bioc/html/epistasisGA.html

License:

GPL-3

Recipe:

/bioconductor-epistasisga/meta.yaml

This package runs the GADGETS method to identify epistatic effects in nuclear family studies. It also provides functions for permutation-based inference and graphical visualization of the results.

package bioconductor-epistasisga

versions:

1.4.0-0,  1.2.1-0,  1.0.0-1,  1.0.0-0

depends bioconductor-biocparallel:

>=1.36.0,<1.37.0

depends bioconductor-biocparallel:

>=1.36.0,<1.37.0a0

depends libblas:

>=3.9.0,<4.0a0

depends libgcc-ng:

>=12

depends liblapack:

>=3.9.0,<4.0a0

depends libstdcxx-ng:

>=12

depends r-base:

>=4.3,<4.4.0a0

depends r-batchtools:

depends r-bh:

depends r-bigmemory:

depends r-data.table:

depends r-ggplot2:

depends r-igraph:

depends r-matrixstats:

depends r-qgraph:

depends r-rcpp:

depends r-rcpparmadillo:

depends r-survival:

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-epistasisga

and update with::

   mamba update bioconductor-epistasisga

To create a new environment, run:

mamba create --name myenvname bioconductor-epistasisga

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-epistasisga:<tag>

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