epiNEM

This is the released version of epiNEM; for the devel version, see epiNEM.

epiNEM


Bioconductor version: Release (3.22)

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 "4.5") 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")

Details

biocViews Network, NetworkInference, Pathways, Software, SystemsBiology
Version 1.34.0
In Bioconductor since BioC 3.5 (R-3.4) (9 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, nempi
Suggests Me mnem
Links To Me
Build Report Build Report

Package Archives

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