recipe bioconductor-raresim

Simulation of Rare Variant Genetic Data

Homepage:

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

License:

GPL-3

Recipe:

/bioconductor-raresim/meta.yaml

Haplotype simulations of rare variant genetic data that emulates real data can be performed with RAREsim. RAREsim uses the expected number of variants in MAC bins - either as provided by default parameters or estimated from target data - and an abundance of rare variants as simulated HAPGEN2 to probabilistically prune variants. RAREsim produces haplotypes that emulate real sequencing data with respect to the total number of variants, allele frequency spectrum, haplotype structure, and variant annotation.

package bioconductor-raresim

(downloads) docker_bioconductor-raresim

versions:

1.10.0-0,  1.6.0-0,  1.4.0-0,  1.2.0-0

depends r-base:

>=4.4,<4.5.0a0

depends r-nloptr:

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 bioconductor-raresim

and update with::

   mamba update bioconductor-raresim

To create a new environment, run:

mamba create --name myenvname bioconductor-raresim

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-raresim:<tag>

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