epiNEM

This package is for version 3.7 of Bioconductor; for the stable, up-to-date release version, see epiNEM.

epiNEM

Bioconductor version: 3.7

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 "3.5") 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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Network, NetworkInference, Pathways, Software, SystemsBiology
Version	1.4.0
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

Suggests	knitr, RUnit, BiocGenerics, STRINGdb, devtools, rmarkdown, GOSemSim, AnnotationHub, org.Sc.sgd.db
Linking To
Enhances
Depends On Me
Imports Me
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_1.4.0.tar.gz
Windows Binary	epiNEM_1.4.0.zip
Mac OS X 10.11 (El Capitan)	epiNEM_1.4.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/epiNEM
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/epiNEM
Package Short Url	https://bioconductor.org/packages/epiNEM/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.7	Source Archive