recipe bioconductor-cbnplot

plot bayesian network inferred from gene expression data based on enrichment analysis results

Homepage:

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

License:

Artistic-2.0

Recipe:

/bioconductor-cbnplot/meta.yaml

This package provides the visualization of bayesian network inferred from gene expression data. The networks are based on enrichment analysis results inferred from packages including clusterProfiler and ReactomePA. The networks between pathways and genes inside the pathways can be inferred and visualized.

package bioconductor-cbnplot

versions:

1.2.0-0,  1.0.0-0

depends bioconductor-biocfilecache:

>=2.10.0,<2.11.0

depends bioconductor-clusterprofiler:

>=4.10.0,<4.11.0

depends bioconductor-depmap:

>=1.16.0,<1.17.0

depends bioconductor-enrichplot:

>=1.22.0,<1.23.0

depends bioconductor-experimenthub:

>=2.10.0,<2.11.0

depends bioconductor-graphite:

>=1.48.0,<1.49.0

depends bioconductor-org.hs.eg.db:

>=3.18.0,<3.19.0

depends r-base:

>=4.3,<4.4.0a0

depends r-bnlearn:

>=4.7

depends r-dplyr:

depends r-ggdist:

depends r-ggforce:

depends r-ggplot2:

depends r-ggraph:

depends r-graphlayouts:

depends r-igraph:

depends r-magrittr:

depends r-oaqc:

depends r-patchwork:

depends r-purrr:

depends r-pvclust:

depends r-reshape2:

depends r-rlang:

depends r-rmpfr:

depends r-stringr:

depends r-tidyr:

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-cbnplot

and update with::

   mamba update bioconductor-cbnplot

To create a new environment, run:

mamba create --name myenvname bioconductor-cbnplot

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-cbnplot:<tag>

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