epiNEM

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see epiNEM.

epiNEM


Bioconductor version: 3.9

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.

Author: Madeline Diekmann & Martin Pirkl

Maintainer: Martin Pirkl <martin.pirkl at bsse.ethz.ch>

Citation (from within R, enter citation("epiNEM")):

Installation

To install this package, start R (version "3.6") 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 PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews Network, NetworkInference, Pathways, Software, SystemsBiology
Version 1.8.0
In Bioconductor since BioC 3.5 (R-3.4) (7 years)
License GPL-3
Depends R (>= 3.4)
Imports BoolNet, e1071, gtools, stats, igraph, nem, utils, lattice, latticeExtra, RColorBrewer, pcalg, minet, grDevices, graph
System Requirements
URL
See More
Suggests knitr, RUnit, BiocGenerics, STRINGdb, devtools, rmarkdown, GOSemSim, AnnotationHub, org.Sc.sgd.db
Linking To
Enhances
Depends On Me
Imports Me mnem
Suggests Me
Links To Me
Build Report Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package epiNEM_1.8.0.tar.gz
Windows Binary epiNEM_1.8.0.zip
Mac OS X 10.11 (El Capitan) epiNEM_1.8.0.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
Old Source Packages for BioC 3.9 Source Archive