recipe bioconductor-bionet

Routines for the functional analysis of biological networks

Homepage:

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

License:

GPL (>= 2)

Recipe:

/bioconductor-bionet/meta.yaml

Links:

biotools: bionet

This package provides functions for the integrated analysis of protein-protein interaction networks and the detection of functional modules. Different datasets can be integrated into the network by assigning p-values of statistical tests to the nodes of the network. E.g. p-values obtained from the differential expression of the genes from an Affymetrix array are assigned to the nodes of the network. By fitting a beta-uniform mixture model and calculating scores from the p-values, overall scores of network regions can be calculated and an integer linear programming algorithm identifies the maximum scoring subnetwork.

package bioconductor-bionet

Versions:

1.58.0-0,  1.54.0-0,  1.52.0-0,  1.50.0-1,  1.50.0-0,  1.47.0-0,  1.46.0-0,  1.44.0-1,  1.42.0-0, 

1.58.0-0,  1.54.0-0,  1.52.0-0,  1.50.0-1,  1.50.0-0,  1.47.0-0,  1.46.0-0,  1.44.0-1,  1.42.0-0,  1.40.0-0,  1.38.0-0,  1.36.0-0,  1.34.0-0

Depends:

• bioconductor-annotationdbi >=1.60.0,<1.61.0

• bioconductor-biobase >=2.58.0,<2.59.0

• bioconductor-graph >=1.76.0,<1.77.0

• bioconductor-rbgl >=1.74.0,<1.75.0

• r-base >=4.2,<4.3.0a0

• r-igraph >=1.0.1

Required By:

• bioconductor-smite

Installation

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

conda install bioconductor-bionet

and update with:

conda update bioconductor-bionet

or use the docker container:

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

(see bioconductor-bionet/tags for valid values for <tag>)

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