recipe bioconductor-bnem

Training of logical models from indirect measurements of perturbation experiments

Homepage:

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

License:

GPL-3

Recipe:

/bioconductor-bnem/meta.yaml

bnem combines the use of indirect measurements of Nested Effects Models (package mnem) with the Boolean networks of CellNOptR. Perturbation experiments of signalling nodes in cells are analysed for their effect on the global gene expression profile. Those profiles give evidence for the Boolean regulation of down-stream nodes in the network, e.g., whether two parents activate their child independently (OR-gate) or jointly (AND-gate).

package bioconductor-bnem

Versions:

1.6.0-0,  1.2.0-0,  1.0.0-0

Depends:

• bioconductor-affy >=1.76.0,<1.77.0

• bioconductor-biobase >=2.58.0,<2.59.0

• bioconductor-cellnoptr >=1.44.0,<1.45.0

• bioconductor-epinem >=1.22.0,<1.23.0

• bioconductor-graph >=1.76.0,<1.77.0

• bioconductor-limma >=3.54.0,<3.55.0

• bioconductor-mnem >=1.14.0,<1.15.0

• bioconductor-rgraphviz >=2.42.0,<2.43.0

• bioconductor-sva >=3.46.0,<3.47.0

• bioconductor-vsn >=3.66.0,<3.67.0

• r-base >=4.2,<4.3.0a0

• r-binom

• r-cluster

• r-flexclust

• r-matrixstats

• r-rcolorbrewer

• r-rmarkdown

• r-snowfall

Required By:

Installation

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

conda install bioconductor-bnem

and update with:

conda update bioconductor-bnem

or use the docker container:

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

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

Download stats

Link to this page

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