recipe bioconductor-pigengene

Infers biological signatures from gene expression data

Homepage:

https://bioconductor.org/packages/3.16/bioc/html/Pigengene.html

License:

GPL (>=2)

Recipe:

/bioconductor-pigengene/meta.yaml

Pigengene package provides an efficient way to infer biological signatures from gene expression profiles. The signatures are independent from the underlying platform, e.g., the input can be microarray or RNA Seq data. It can even infer the signatures using data from one platform, and evaluate them on the other. Pigengene identifies the modules (clusters) of highly coexpressed genes using coexpression network analysis, summarizes the biological information of each module in an eigengene, learns a Bayesian network that models the probabilistic dependencies between modules, and builds a decision tree based on the expression of eigengenes.

package bioconductor-pigengene

Versions:

1.24.0-0,  1.20.0-0,  1.18.0-0,  1.16.0-1,  1.16.0-0,  1.14.0-0,  1.12.0-0,  1.10.0-1,  1.8.0-0

Depends:

• bioconductor-biocstyle >=2.26.0,<2.27.0

• bioconductor-clusterprofiler >=4.6.0,<4.7.0

• bioconductor-dose >=3.24.0,<3.25.0

• bioconductor-go.db >=3.16.0,<3.17.0

• bioconductor-graph >=1.76.0,<1.77.0

• bioconductor-impute >=1.72.0,<1.73.0

• bioconductor-preprocesscore >=1.60.0,<1.61.0

• bioconductor-reactomepa >=1.42.0,<1.43.0

• bioconductor-rgraphviz >=2.42.0,<2.43.0

• r-base >=4.2,<4.3.0a0

• r-bnlearn >=4.7

• r-c50 >=0.1.2

• r-dbi

• r-dplyr

• r-gdata

• r-ggplot2

• r-mass

• r-matrixstats

• r-openxlsx

• r-partykit

• r-pheatmap >=1.0.8

• r-wgcna

Required By:

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install bioconductor-pigengene

and update with:

conda update bioconductor-pigengene

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-pigengene:<tag>

(see bioconductor-pigengene/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-pigengene/README.html)