bnem
Training of logical models from indirect measurements of perturbation experiments
Bioconductor version: 3.23 · Package version: 1.20.0
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
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).
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("bnem")Details
| Maintainer | Martin Pirkl <martinpirkl@yahoo.de> |
| Author | Martin Pirkl [aut, cre] |
| License | GPL-3 |
| URL | https://github.com/MartinFXP/bnem/ |
| Bug Reports | https://github.com/MartinFXP/bnem/issues |
| Source branch | RELEASE_3_23 |
| Build report | Bioconductor build system, r-universe |
| biocViews | GeneExpression, GeneRegulation, Network, NetworkInference, Pathways, Preprocessing, Software, SystemsBiology |
| Package Short Url | https://bioconductor.org/packages/bnem/ |
Citation
From within R, enter citation("bnem"):
Martin Pirkl. bnem: Training of logical models from indirect measurements of perturbation experiments. doi:10.18129/B9.bioc.bnem, R package version 1.20.0, https://bioconductor.org/packages/bnem.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | bnem_1.20.0.tar.gz |
| Windows binary (x86_64) | bnem_1.20.0.zip |
| macOS binary (arm64) | bnem_1.20.0.tgz |
| macOS binary (x86_64) | bnem_1.20.0.tgz |