recipe bioconductor-borealis

Bisulfite-seq OutlieR mEthylation At singLe-sIte reSolution

Homepage:

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

License:

GPL-3

Recipe:

/bioconductor-borealis/meta.yaml

Borealis is an R library performing outlier analysis for count-based bisulfite sequencing data. It detectes outlier methylated CpG sites from bisulfite sequencing (BS-seq). The core of Borealis is modeling Beta-Binomial distributions. This can be useful for rare disease diagnoses.

package bioconductor-borealis

versions:

1.4.0-0,  1.2.0-0

depends bioconductor-biobase:

>=2.60.0,<2.61.0

depends bioconductor-bsseq:

>=1.36.0,<1.37.0

depends bioconductor-dss:

>=2.48.0,<2.49.0

depends bioconductor-genomicranges:

>=1.52.0,<1.53.0

depends r-base:

>=4.3,<4.4.0a0

depends r-cowplot:

depends r-doparallel:

depends r-dplyr:

depends r-foreach:

depends r-gamlss:

depends r-gamlss.dist:

depends r-ggplot2:

depends r-plyr:

depends r-purrr:

depends r-r.utils:

depends r-rlang:

depends r-snow:

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-borealis

and update with::

   mamba update bioconductor-borealis

To create a new environment, run:

mamba create --name myenvname bioconductor-borealis

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-borealis:<tag>

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