recipe bioconductor-knowyourcg

Functional analysis of DNA methylome datasets

Homepage:

https://bioconductor.org/packages/3.20/bioc/html/knowYourCG.html

License:

MIT + file LICENSE

Recipe:

/bioconductor-knowyourcg/meta.yaml

knowYourCG automates the functional analysis of DNA methylation data. The package tests the enrichment of discrete CpG probes across thousands of curated biological and technical features. GSEA-like analysis can be performed on continuous methylation data query sets. knowYourCG can also take beta matrices as input to perform feature aggregation over the curated database sets.

package bioconductor-knowyourcg

(downloads) docker_bioconductor-knowyourcg

versions:

1.2.0-0

depends bioconductor-genomicranges:

>=1.58.0,<1.59.0

depends bioconductor-iranges:

>=2.40.0,<2.41.0

depends bioconductor-s4vectors:

>=0.44.0,<0.45.0

depends bioconductor-sesamedata:

>=1.24.0,<1.25.0

depends r-base:

>=4.4,<4.5.0a0

depends r-dplyr:

depends r-reshape2:

depends r-rlang:

depends r-stringr:

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-knowyourcg

and update with::

   mamba update bioconductor-knowyourcg

To create a new environment, run:

mamba create --name myenvname bioconductor-knowyourcg

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-knowyourcg:<tag>

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