epiNEM
epiNEM
Bioconductor version: Release (3.20)
epiNEM is an extension of the original Nested Effects Models (NEM). EpiNEM is able to take into account double knockouts and infer more complex network signalling pathways. It is tailored towards large scale double knock-out screens.
Author: Madeline Diekmann & Martin Pirkl
Maintainer: Martin Pirkl <martinpirkl at yahoo.de>
Citation (from within R, enter
citation("epiNEM")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("epiNEM")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("epiNEM")| epiNEM | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Network, NetworkInference, Pathways, Software, SystemsBiology |
| Version | 1.30.0 |
| In Bioconductor since | BioC 3.5 (R-3.4) (7.5 years) |
| License | GPL-3 |
| Depends | R (>= 4.1) |
| Imports | BoutrosLab.plotting.general, BoolNet, e1071, gtools, stats, igraph, utils, lattice, latticeExtra, RColorBrewer, pcalg, minet, grDevices, graph, mnem, latex2exp |
| System Requirements | |
| URL | https://github.com/cbg-ethz/epiNEM/ |
| Bug Reports | https://github.com/cbg-ethz/epiNEM/issues |
See More
| Suggests | knitr, RUnit, BiocGenerics, STRINGdb, devtools, rmarkdown, GOSemSim, AnnotationHub, org.Sc.sgd.db, BiocStyle |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | bnem, dce, nempi |
| Suggests Me | mnem |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | epiNEM_1.30.0.tar.gz |
| Windows Binary (x86_64) | epiNEM_1.30.0.zip |
| macOS Binary (x86_64) | epiNEM_1.30.0.tgz |
| macOS Binary (arm64) | epiNEM_1.30.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/epiNEM |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/epiNEM |
| Bioc Package Browser | https://code.bioconductor.org/browse/epiNEM/ |
| Package Short Url | https://bioconductor.org/packages/epiNEM/ |
| Package Downloads Report | Download Stats |